Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 165 of 185
Found at i:49329563 original size:17 final size:16
Alignment explanation
Indices: 49329541--49329580 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
49329531 TATCTTAAAC
49329541 ATTTTTTCATAATTTAT
1 ATTTTTT-ATAATTTAT
*
49329558 ATTTTTTATCATTTAT
1 ATTTTTTATAATTTAT
*
49329574 AATTTTT
1 ATTTTTT
49329581 GCACATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (16 bp):
ATTTTTTATAATTTAT
Found at i:49329571 original size:16 final size:18
Alignment explanation
Indices: 49329541--49329580 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
49329531 TATCTTAAAC
49329541 ATTTTTTCATAATTTAT-
1 ATTTTTTCATAATTTATA
*
49329558 ATTTTTT-ATCATTTATA
1 ATTTTTTCATAATTTATA
49329575 ATTTTT
1 ATTTTT
49329581 GCACATTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTTCATAATTTATA
Found at i:49330290 original size:19 final size:18
Alignment explanation
Indices: 49330244--49330290 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
49330234 ATGAGTTAGC
49330244 TTTAATATTTACATTTTT
1 TTTAATATTTACATTTTT
* *
49330262 TTATGAAT-TTAACCTTTTT
1 TT-T-AATATTTACATTTTT
49330281 TTTAATATTT
1 TTTAATATTT
49330291 TGACTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 6
0.72 0.09 0.19
Matches are distributed among these distances:
17 3 0.13
18 5 0.22
19 12 0.52
20 3 0.13
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTAATATTTACATTTTT
Found at i:49338740 original size:4 final size:4
Alignment explanation
Indices: 49338731--49338786 Score: 112
Period size: 4 Copynumber: 14.0 Consensus size: 4
49338721 GTCTCAATCT
49338731 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
49338779 TGTA TGTA
1 TGTA TGTA
49338787 AAGCTAAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 52 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:49341865 original size:21 final size:21
Alignment explanation
Indices: 49341807--49341870 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
49341797 CTTTTCGTTT
* * *
49341807 AGCTCTCACGAGCTTCTATTT
1 AGCTCTTACGAGCTTCCATTC
* * * *
49341828 AACCCTTATGAGTTTCCATTC
1 AGCTCTTACGAGCTTCCATTC
*
49341849 AGCTCTTACGAGCTTCCGTTC
1 AGCTCTTACGAGCTTCCATTC
49341870 A
1 A
49341871 ACCATTTTGG
Statistics
Matches: 31, Mismatches: 12, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.36
Consensus pattern (21 bp):
AGCTCTTACGAGCTTCCATTC
Found at i:49341895 original size:42 final size:41
Alignment explanation
Indices: 49341799--49341912 Score: 102
Period size: 42 Copynumber: 2.7 Consensus size: 41
49341789 CGTGTTTACT
* * *
49341799 TTTCGTTTAGCTCTCACGAGCTTCTATTTAACCCTTATGAG
1 TTTCGTTTAGCTCTCACGAGCTTCCATTCAACCATTATGAG
* * * * * *
49341840 TTTCCATTCAGCTCTTACGAGCTTCCGTTCAACCATTTTGGG
1 TTT-CGTTTAGCTCTCACGAGCTTCCATTCAACCATTATGAG
* * *
49341882 TTTCTGTTTAGCTCCCATGAGCTTCTATTCA
1 TTTC-GTTTAGCTCTCACGAGCTTCCATTCA
49341913 GCCTTCGGGC
Statistics
Matches: 55, Mismatches: 16, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
41 4 0.07
42 51 0.93
ACGTcount: A:0.18, C:0.26, G:0.15, T:0.41
Consensus pattern (41 bp):
TTTCGTTTAGCTCTCACGAGCTTCCATTCAACCATTATGAG
Found at i:49343763 original size:11 final size:11
Alignment explanation
Indices: 49343747--49343773 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
49343737 TCAAAAGTAG
49343747 TTAATTTAAAT
1 TTAATTTAAAT
49343758 TTAATTTAAAT
1 TTAATTTAAAT
49343769 TTAAT
1 TTAAT
49343774 ATGCACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:49344267 original size:57 final size:55
Alignment explanation
Indices: 49344146--49344271 Score: 128
Period size: 57 Copynumber: 2.3 Consensus size: 55
49344136 CACACCCCTA
* **
49344146 AAAAATTATTTTTTAATTAGATAAGGGGTGCCGGCCATCAGTGTGTCAGCACCTC
1 AAAAATTATTTTTTAATTAAATAAGGGGTGCCGGCCATCAGTGTGTCAAAACCTC
*** ** * *
49344201 AATTTTTATTTTTATTTTTAAATATATGGGTGTCGGCCATCTAGTGT-TCAAAACCTC
1 AAAAATTATTTTT-TAATTAAATA-AGGGGTGCCGGCCATC-AGTGTGTCAAAACCTC
49344258 AAAAATTATTTTTT
1 AAAAATTATTTTTT
49344272 TAATAGAAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
55 10 0.18
56 8 0.15
57 32 0.58
58 5 0.09
ACGTcount: A:0.29, C:0.14, G:0.16, T:0.40
Consensus pattern (55 bp):
AAAAATTATTTTTTAATTAAATAAGGGGTGCCGGCCATCAGTGTGTCAAAACCTC
Found at i:49355392 original size:25 final size:27
Alignment explanation
Indices: 49355360--49355414 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
49355350 TGTTTGAATT
49355360 TTAAAATT-ATATT-TATTTTTTATAA
1 TTAAAATTAATATTATATTTTTTATAA
*
49355385 TTAAAATTAATTTTATATTTTTTATAA
1 TTAAAATTAATATTATATTTTTTATAA
49355412 TTA
1 TTA
49355415 GGACCCAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 8 0.30
26 4 0.15
27 15 0.56
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTAAAATTAATATTATATTTTTTATAA
Found at i:49356842 original size:2 final size:2
Alignment explanation
Indices: 49356835--49356864 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
49356825 CATACACTAT
49356835 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
49356865 AAAAAACTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:49361745 original size:25 final size:23
Alignment explanation
Indices: 49361709--49361754 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
49361699 TTTATAATTT
49361709 TTTTTATGTTTTGAATATTTTTTAA
1 TTTTTATGTTTT--ATATTTTTTAA
49361734 TTTTTA-GATTTTATATTTTTT
1 TTTTTATG-TTTTATATTTTTT
49361755 TTTCAAGTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.72
Consensus pattern (23 bp):
TTTTTATGTTTTATATTTTTTAA
Found at i:49362661 original size:13 final size:14
Alignment explanation
Indices: 49362637--49362670 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
49362627 TCGTGTTTAA
49362637 TATTTATAATAAT-T
1 TATTT-TAATAATAT
49362651 TATTTTAATAATAT
1 TATTTTAATAATAT
49362665 TATTTT
1 TATTTT
49362671 TAAATTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TATTTTAATAATAT
Found at i:49366179 original size:22 final size:21
Alignment explanation
Indices: 49366121--49366181 Score: 54
Period size: 22 Copynumber: 2.8 Consensus size: 21
49366111 AACAAAATTT
*
49366121 AATAAATTATAAT-TAATTTAA
1 AATAAATTA-AATATAATTAAA
*
49366142 AAT-AATGGAAAATATAATTAAA
1 AATAAAT--TAAATATAATTAAA
49366164 AATAAATTAAACTATAAT
1 AATAAATTAAA-TATAAT
49366182 CAGTTTAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
20 3 0.09
21 9 0.28
22 17 0.53
23 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (21 bp):
AATAAATTAAATATAATTAAA
Found at i:49366413 original size:30 final size:30
Alignment explanation
Indices: 49366379--49366473 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
49366369 TATAATGTTA
49366379 AAATATGACATAAGTCCCTATATTAATCAT
1 AAATATGACATAAGTCCCTATATTAATCAT
* ** * *
49366409 AAATATGGA-ATTTAGT-TTTATAAT-GTCA-
1 AAATAT-GACA-TAAGTCCCTATATTAATCAT
* *
49366437 AAATATGACATAAGTCCCTGTATTATTCAT
1 AAATATGACATAAGTCCCTATATTAATCAT
49366467 AAATATG
1 AAATATG
49366474 GAATTTAGTT
Statistics
Matches: 48, Mismatches: 11, Indels: 12
0.68 0.15 0.17
Matches are distributed among these distances:
27 6 0.12
28 11 0.23
29 6 0.12
30 19 0.40
31 6 0.12
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.37
Consensus pattern (30 bp):
AAATATGACATAAGTCCCTATATTAATCAT
Found at i:49366461 original size:58 final size:58
Alignment explanation
Indices: 49366367--49366484 Score: 209
Period size: 58 Copynumber: 2.0 Consensus size: 58
49366357 AACTAATATA
*
49366367 TTTATAATGTTAAAATATGACATAAGTCCCTATATTAATCATAAATATGGAATTTAGT
1 TTTATAATGTCAAAATATGACATAAGTCCCTATATTAATCATAAATATGGAATTTAGT
* *
49366425 TTTATAATGTCAAAATATGACATAAGTCCCTGTATTATTCATAAATATGGAATTTAGT
1 TTTATAATGTCAAAATATGACATAAGTCCCTATATTAATCATAAATATGGAATTTAGT
49366483 TT
1 TT
49366485 ATGTTCTATT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (58 bp):
TTTATAATGTCAAAATATGACATAAGTCCCTATATTAATCATAAATATGGAATTTAGT
Found at i:49366723 original size:3 final size:3
Alignment explanation
Indices: 49366715--49366743 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
49366705 GGGCATACAT
49366715 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
49366744 TCTTCGAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:49370193 original size:21 final size:22
Alignment explanation
Indices: 49370164--49370210 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
49370154 CAGAAGGAGT
*
49370164 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
49370186 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
49370207 GAGT
1 GAGT
49370211 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:49372798 original size:133 final size:133
Alignment explanation
Indices: 49372512--49372803 Score: 360
Period size: 133 Copynumber: 2.2 Consensus size: 133
49372502 CGCAACAAAG
* * * * *
49372512 ATAACGAATTTGAGGAAAAAATCT-GAGCAAAACAGTGCCGTTTTGTTGTTTCATTTTATTTCTT
1 ATAACTAATTTGAGGAAAAAATTTGGAGCAAAACAGTACCGTTTTATTGCTTCATTTTATTTCTT
*
49372576 TAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGAATTAGCGGCGTTTTCAGGGAAACGCCGGT
66 TAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGAATTAGCGGCGTTTT-AGGGAAACGCCAGT
*
49372641 AAAG
130 AAAA
49372645 ATAACTAATTTGAGGAAAAAATTTGGA-CAAAAC-GCTACCGTTTTATTGCTTCATTTTATTTCT
1 ATAACTAATTTGAGGAAAAAATTTGGAGCAAAACAG-TACCGTTTTATTGCTTCATTTTATTTCT
* * * * *
49372708 TTAGTGGCGCATTGTAAAAGACGCC-GCAAATATTGGGATATAGTGGCGTTATT-GGAGAAACGC
65 TTAGTGGCGCATTGTAAAAAACGCCGGAAAAGATT-GAAT-TAGCGGCGTT-TTAGG-GAAACGC
*
49372771 TAGTAAAA
126 CAGTAAAA
* *
49372779 ATATCTAATTTGAGGAAAAACTTTG
1 ATAACTAATTTGAGGAAAAAATTTG
49372804 AATGAATGGA
Statistics
Matches: 138, Mismatches: 15, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
132 8 0.06
133 82 0.59
134 46 0.33
135 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (133 bp):
ATAACTAATTTGAGGAAAAAATTTGGAGCAAAACAGTACCGTTTTATTGCTTCATTTTATTTCTT
TAGTGGCGCATTGTAAAAAACGCCGGAAAAGATTGAATTAGCGGCGTTTTAGGGAAACGCCAGTA
AAA
Found at i:49377308 original size:64 final size:64
Alignment explanation
Indices: 49377206--49377335 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 64
49377196 ATATAAGGAC
*
49377206 AGGTCAGTTTTGAGCCTCTATCCCACCATGTGGGATTATCAAAATGATTGAAACAAAATTGTAA
1 AGGTCAGTTTTGAGCCACTATCCCACCATGTGGGATTATCAAAATGATTGAAACAAAATTGTAA
*
49377270 AGGTCAGTTTTGAGCCACTATCCCACCATGTGGTATTATCAAAATGATTGAAACAAAATTGTAA
1 AGGTCAGTTTTGAGCCACTATCCCACCATGTGGGATTATCAAAATGATTGAAACAAAATTGTAA
49377334 AG
1 AG
49377336 ACTTCTTTCA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.29
Consensus pattern (64 bp):
AGGTCAGTTTTGAGCCACTATCCCACCATGTGGGATTATCAAAATGATTGAAACAAAATTGTAA
Found at i:49381471 original size:46 final size:46
Alignment explanation
Indices: 49381401--49381490 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
49381391 GATACACGTC
* * * *
49381401 TTGAAGCTTTCGTTAATTTATCATAATTTTATTTTATCTCCACATT
1 TTGAAGCTTTCATTAATTTATCATAAATTCATTTTATCCCCACATT
*
49381447 TTGAAGCTTTCATTAATTTCTCATAAATTCATTTTATCCCCACA
1 TTGAAGCTTTCATTAATTTATCATAAATTCATTTTATCCCCACA
49381491 CACCAACAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.48
Consensus pattern (46 bp):
TTGAAGCTTTCATTAATTTATCATAAATTCATTTTATCCCCACATT
Found at i:49382867 original size:30 final size:30
Alignment explanation
Indices: 49382833--49382895 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
49382823 ACTTATTTTA
*
49382833 TTGTTCATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
49382863 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
49382893 TTG
1 TTG
49382896 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:49383380 original size:18 final size:18
Alignment explanation
Indices: 49383338--49383378 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
49383328 TTATATTTTT
* *
49383338 TAAATATATTAATTACTA
1 TAAAAATATTAATTACGA
49383356 TAAAAATATTAA-TACGA
1 TAAAAATATTAATTACGA
49383373 TAAAAA
1 TAAAAA
49383379 ATTCTAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.34
Consensus pattern (18 bp):
TAAAAATATTAATTACGA
Found at i:49387558 original size:588 final size:587
Alignment explanation
Indices: 49386347--49388047 Score: 2072
Period size: 588 Copynumber: 2.9 Consensus size: 587
49386337 AATATACATA
* * *
49386347 AAAACTTAGGAAGACGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTCTGTGCTTT
1 AAAACTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTTTGTGCTTT
* *** *
49386412 CATTTAAAACACGACAGAATACAATAAAAATGATAC-CCGA-GTGTATTCAATAGTTATAAATAA
66 CATTTAAAACACGACAAAATACAATAAAAAT--TACATATATGTGTATTTAATAG-TATAAATAA
* * * *
49386475 AAAAGAAGAATCTATTTGTTGTCAATTTTATTTAAATTTTCAGTGAACGTTAGCATATATAAAAG
128 AAAAGAAGAATATATTTGTTGCCAAATTTATTTAAATTTT-AGTGAACGTTAACATATATAAAAG
* *
49386540 TCTTATTCATCAAAGCTTAAAAAGATGTTCAAATTTTAAAATATCAACTC-ATATCTTTATTGAA
192 TCTTATTCATCAAAGCTTAGAAAGATGTTCAAA----AAAA-A-AAACTCAATATCTTT-TTGAA
*
49386604 ACCTTTCGTT-TTCTCATTTAAAACATGACAAAATACAATAAAAATGATATCTATGTGTATTTAA
250 ACATTTCGTTCTT-TCATTTAAAACATGACAAAATACAATAAAAATGATA--TATGTGTATTTAA
* *
49386668 TAGTTATAAATAAAAAGAAGAATTTGTTTGTTGTCAAA-TCTATTTAAAATTTT-AGTTAAAGTT
312 TAGTTATAAATAAAAAGAAGAATTTGTTTGTTGTCAAATTC-ATTT-AAATTTTCAGTGAATGTT
*
49386731 AACACATACATAAAAACTTAGGAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAAC
375 AACAAATACATAAAAACTTAGGAAGATGTTCAAAATTTAAAATTAACTCATAT-TTTCTTGAAAC
* * * * *
49386796 A-TTCTGTTTTCACTTAAAACACGACAAAATATAATAAAAATGATATATGTGTGTATTTAATAGT
439 ATTTGTGTTTTCATTTAAAACACGACAAAATATAATAAAAATGACACACGTGTGTATTTAATAGT
* *
49386860 TATAAATAAAAAGAATAACCTGTTTGTTGCCAATTTTATTTAAATTTTCAGTGAACATTAACATA
504 TATAAATAAAAAGAATAACCTGATTGTTGCCAATTTTATTTAAATTTCCAGTGAACATTAACATA
*
49386925 TGCAAAAGCCTCGTTCATC
569 TACAAAAGCCTCGTTCATC
* *
49386944 AAAACTTAAAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTAAAACATTTTGTG-TCT
1 AAAACTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTTTGTGCT-T
* *
49387008 TCATTTAAAACACGACAAAATATAATAAAAATTACATTTATGTGTATTTAATAGCTATAAATAAA
65 TCATTTAAAACACGACAAAATACAATAAAAATTACATATATGTGTATTTAATAG-TATAAATAAA
* *
49387073 AAAGAAGAATATATTTGTTGCCAAATTTATTTAAACTTTTAGTGAAGGTTAACATATACAAAAGT
129 AAAGAAGAATATATTTGTTGCCAAATTTATTTAAA-TTTTAGTGAACGTTAACATATATAAAAGT
* * *
49387138 TTTATTCATCAAAGTTTAGAAAGATGTTCAAAAAAAAAAAC-CAATATCTTTCTTGAAACATTTT
193 CTTATTCATCAAAGCTTAGAAAGATGTTCAAAAAAAAAAACTCAATATCTTT-TTGAAACATTTC
* * * *
49387202 GTTCTTTCATTTAAAACACGGCAAAATGCAATAAAAATGATATATGTGTATTTAATAATTATAAA
257 GTTCTTTCATTTAAAACATGACAAAATACAATAAAAATGATATATGTGTATTTAATAGTTATAAA
* * * *
49387267 T-AAAAGAA-AAATTATTTGTTGTCAAATTCATTTAAATTTTCAATGAATGTTAACATATACATA
322 TAAAAAGAAGAATTTGTTTGTTGTCAAATTCATTTAAATTTTCAGTGAATGTTAACAAATACATA
49387330 AAAACTTAGGAAGATGTTCAAAATTTAAAATTAACTCATATATTTCTTGAAACATTTGTGTTTTC
387 AAAACTTAGGAAGATGTTCAAAATTTAAAATTAACTCATAT-TTTCTTGAAACATTTGTGTTTTC
* * * *
49387395 ATTTGAAACACGACAAGATACAATAAAAATGACACACGTGTGTATTTAATAGTTATAAATAATAA
451 ATTTAAAACACGACAAAATATAATAAAAATGACACACGTGTGTATTTAATAGTTATAAATAAAAA
* * * *
49387460 GAATAATCTGATTGTTGCCAATTTTATTTAAATTTCCGGTGAACGTTAACATATACAAAAGCCTT
516 GAATAACCTGATTGTTGCCAATTTTATTTAAATTTCCAGTGAACATTAACATATACAAAAGCCTC
49387525 GTTCATC
581 GTTCATC
** ** *
49387532 AATGCTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACGCTTCGTGCTTT
1 AAAACTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTTTGTGCTTT
* * * * * *
49387597 CATTTAAGACATGACAAAATACAATAAAAATGATATATGTATGTATTTAATAGT-T--ATAAGAA
66 CATTTAAAACACGACAAAATACAATAAAAATTACATATATGTGTATTTAATAGTATAAATAA-AA
* * * * * *
49387659 AAGAATAATTTGTTTGTTGCCAAATTTATTTAAAATTCTAGTGAATGTTAACATATATAAAAGCC
130 AAGAAGAATATATTTGTTGCCAAATTTATTT-AAATTTTAGTGAACGTTAACATATATAAAAGTC
* * * * * ** *
49387724 TTGTTTATCAAAACTTAGAAAGATATTCAAAATTTCATATTAACTCATATAT-TTTTTGAAATAT
194 TTATTCATCAAAGCTTAGAAAGATGTTCAAAA----AAAAAAACTCA-ATATCTTTTTGAAACAT
* * * * * *
49387788 CTCGTGCTTTCATTTAATACATGACAAAATATAACAAAAATAATATATGTGTATTTAATAGTTAT
254 TTCGTTCTTTCATTTAAAACATGACAAAATACAATAAAAATGATATATGTGTATTTAATAGTTAT
* * * * *
49387853 AAATAAAAAGAATAATTTGTTTGCTGTCAAGTTTATTTAAATTTTCAGTGAATATTAACAAATAC
319 AAATAAAAAGAAGAATTTGTTTGTTGTCAAATTCATTTAAATTTTCAGTGAATGTTAACAAATAC
* * ** * * * *
49387918 ATCAAAACTCAAAAAGATGTTCAAAATTCAAAATCAATTCAT-TTTT-TTGAAACATTCTGTGCT
384 ATAAAAACTTAGGAAGATGTTCAAAATTTAAAATTAACTCATATTTTCTTGAAACATT-TGTGTT
* * * * * *
49387981 TT-AGTTTAAAATACGACAAAATATAATAAAAATGATATC-TGTGTGCATTAAATAGTCATAAAT
448 TTCA-TTTAAAACACGACAAAATATAATAAAAATGACA-CACGTGTGTATTTAATAGTTATAAAT
49388044 AAAA
511 AAAA
49388048 TGAAGAATTT
Statistics
Matches: 960, Mismatches: 121, Indels: 54
0.85 0.11 0.05
Matches are distributed among these distances:
584 4 0.00
585 82 0.09
586 11 0.01
587 92 0.10
588 252 0.26
589 156 0.16
590 15 0.02
591 140 0.15
592 3 0.00
593 4 0.00
595 3 0.00
596 2 0.00
597 192 0.20
598 4 0.00
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.36
Consensus pattern (587 bp):
AAAACTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACATTTTGTGCTTT
CATTTAAAACACGACAAAATACAATAAAAATTACATATATGTGTATTTAATAGTATAAATAAAAA
AGAAGAATATATTTGTTGCCAAATTTATTTAAATTTTAGTGAACGTTAACATATATAAAAGTCTT
ATTCATCAAAGCTTAGAAAGATGTTCAAAAAAAAAAACTCAATATCTTTTTGAAACATTTCGTTC
TTTCATTTAAAACATGACAAAATACAATAAAAATGATATATGTGTATTTAATAGTTATAAATAAA
AAGAAGAATTTGTTTGTTGTCAAATTCATTTAAATTTTCAGTGAATGTTAACAAATACATAAAAA
CTTAGGAAGATGTTCAAAATTTAAAATTAACTCATATTTTCTTGAAACATTTGTGTTTTCATTTA
AAACACGACAAAATATAATAAAAATGACACACGTGTGTATTTAATAGTTATAAATAAAAAGAATA
ACCTGATTGTTGCCAATTTTATTTAAATTTCCAGTGAACATTAACATATACAAAAGCCTCGTTCA
TC
Found at i:49387677 original size:789 final size:785
Alignment explanation
Indices: 49386384--49387918 Score: 1872
Period size: 789 Copynumber: 1.9 Consensus size: 785
49386374 AAATTAACTC
*
49386384 ATATCTTTCTTGAAACATTCTGTGCTTTCATTTAAAACACGACAGAATACAATAAAAATGATACC
1 ATATCTTTCTTGAAACATTCTGTGCTTTCATTTAAAACACGACAAAATACAATAAAAATGATA--
* * * *
49386449 CGAGTGTATTCAATAGTTATAAATAAAAAAGAAGAATCTATTTGTTGTCAATTTTATTTAAATTT
64 CGAGTGTATTCAATAATTATAAAT-AAAAAGAAAAATCTATTTGTTGTCAAATTCATTTAAATTT
* * * *
49386514 TCAGTGAACGTTAGCATATATAAAAGTCTTATTCATCAAAGCTTAAAAAGATGTTCAAATTTTAA
128 TCAATGAACGTTA-CACATAT--AAG-C-TATTCA-CAAAACTTAAAAAGATGTTCAAAATTTAA
* * *
49386579 AATATCAACTCATATCTTTATTGAAACCTTTCGTTTTCTCATTTAAAACATGACAAAATACAATA
187 AATATCAACTCATATATTTATTGAAACATTTCGTTTTCTCATTTAAAACACGACAAAATACAATA
* * * *
49386644 AAAATGATATCTATGTGTATTTAATAGTTATAAATAAAAAGAAGAATTTGTTTGTTGTCAAATCT
252 AAAATGACATCTATGTGTATTTAATAGTTATAAATAAAAAGAAGAATCTGATTGTTGCCAAATCT
* * * *
49386709 ATTTAAAATTTTAGTTAAAGTTAACACATACATAAAAACTTAGGAAGATGTTCAAAATTTAAAAT
317 ATTTAAAATTTCAGTGAAAGTTAACACATACAAAAAAACTTAGAAAGATGTTCAAAATTTAAAAT
* *
49386774 TAACTCATATCTTTCTTGAAACATTCTGTTTTCACTTAAAACACGACAAAATATAATAAAAATGA
382 TAACTCATATCTTTCTTGAAACATTCTGCTTTCACTTAAAACACGACAAAATACAATAAAAATGA
* *
49386839 TATATGTGTGTATTTAATAGTTATAAATAAAAAGAATAACCTGTTTGTTGCCAATTTTATTT-AA
447 TATATGTATGTATTTAATAGTTATAAATAAAAAGAATAACCTGTTTGTTGCCAAATTTATTTAAA
* * *
49386903 ATTTTCAGTGAACATTAACATATGCAAAAGCCTCGTTCATCAAAACTTAAAAAGATGTTCAAAAT
512 ATTCT-AGTGAACATTAACATATACAAAAGCCTCGTTCATCAAAACTTAAAAAGATATTCAAAAT
* * *
49386968 TTAAAATTAACTCATATCTTTCTTAAAACATTTTGTG-TCTTCATTTAAAACACGACAAAATATA
576 TTAAAATTAACTCATATATTTCTTAAAACATCTCGTGCT-TTCATTTAAAACACGACAAAATATA
* * *
49387032 ATAAAAATTACATTTATGTGTATTTAATAGCTATAAATAAAAAAGAAGAATATATTTGTTGCCAA
640 ACAAAAA-TA-ATATATGTGTATTTAATAGCTATAAAT-AAAAAGAAGAATATATTTGCTGCCAA
* *
49387097 ATTTATTTAAACTTTT-AGTGAAGGTTAACATATACAAAAGTTTTATTCATCAAAGTTTAGAAAG
702 ATTTATTTAAA-TTTTCAGTGAAGATTAACAAATACAAAAGTTTTATTCATCAAAGTTTAGAAAG
49387161 ATGTTCAAAAAAAAAAACCA
766 ATGTTCAAAAAAAAAAACCA
* * * * *
49387181 ATATCTTTCTTGAAACATTTTGTTCTTTCATTTAAAACACGGCAAAATGCAATAAAAATGATA-T
1 ATATCTTTCTTGAAACATTCTGTGCTTTCATTTAAAACACGACAAAATACAATAAAAATGATACG
*
49387245 ATGTGTATTTAATAATTATAAAT-AAAAGAAAAAT-TATTTGTTGTCAAATTCATTTAAATTTTC
66 A-GTGTATTCAATAATTATAAATAAAAAGAAAAATCTATTTGTTGTCAAATTCATTTAAATTTTC
* **
49387308 AATGAATGTTA-ACATAT-A-C-A-T-A-AAAACTTAGGAAGATGTTCAAAATTTAAAAT-T-AA
130 AATGAACGTTACACATATAAGCTATTCACAAAACTTAAAAAGATGTTCAAAATTTAAAATATCAA
* * *
49387364 CTCATATATTTCTTGAAACATTT-GTGTTT-TCATTTGAAACACGACAAGATACAATAAAAATGA
195 CTCATATATTTATTGAAACATTTCGT-TTTCTCATTTAAAACACGACAAAATACAATAAAAATGA
* * * *
49387427 CA-C-ACGTGTGTATTTAATAGTTATAAATAATAAGAATAATCTGATTGTTGCCAATTTTATTT-
259 CATCTA--TGTGTATTTAATAGTTATAAATAAAAAGAAGAATCTGATTGTTGCCAAATCTATTTA
* * *
49387489 AAATTTCCGGTGAACGTTAACATATACAAAAGCCTTGTTCATCAATGCTTAGAAAGATGTTCAAA
322 AAATTT-CAGTGAAAGTTAACACATACAAAA---------A--AA--CTTAGAAAGATGTTCAAA
* * * *
49387554 ATTTAAAATTAACTCATATCTTTCTTGAAACGCTTCGTGCTTTCATTTAAGACATGACAAAATAC
373 ATTTAAAATTAACTCATATCTTTCTTGAAAC-ATTC-TGCTTTCACTTAAAACACGACAAAATAC
* **
49387619 AATAAAAATGATATATGTATGTATTTAATAGTTAT-AA-GAAAAGAATAATTTGTTTGTTGCCAA
436 AATAAAAATGATATATGTATGTATTTAATAGTTATAAATAAAAAGAATAACCTGTTTGTTGCCAA
** * * * *
49387682 ATTTATTTAAAATTCTAGTGAATGTTAACATATATAAAAGCCTTGTTTATCAAAACTTAGAAAGA
501 ATTTATTTAAAATTCTAGTGAACATTAACATATACAAAAGCCTCGTTCATCAAAACTTAAAAAGA
* * * * * * *
49387747 TATTCAAAATTTCATATTAACTCATATATTTTTTGAAATATCTCGTGCTTTCATTTAATACATGA
566 TATTCAAAATTTAAAATTAACTCATATATTTCTTAAAACATCTCGTGCTTTCATTTAAAACACGA
* * * *
49387812 CAAAATATAACAAAAATAATATATGTGTATTTAATAGTTATAAATAAAAAGAATAATTTGTTTGC
631 CAAAATATAACAAAAATAATATATGTGTATTTAATAGCTATAAATAAAAAGAAGAATATATTTGC
* * *
49387877 TGTCAAGTTTATTTAAATTTTCAGTGAATATTAACAAATACA
696 TGCCAAATTTATTTAAATTTTCAGTGAAGATTAACAAATACA
49387919 TCAAAACTCA
Statistics
Matches: 634, Mismatches: 81, Indels: 57
0.82 0.10 0.07
Matches are distributed among these distances:
774 1 0.00
775 7 0.01
776 101 0.16
777 25 0.04
778 1 0.00
779 27 0.04
781 1 0.00
782 1 0.00
783 1 0.00
785 6 0.01
786 48 0.08
787 28 0.04
788 2 0.00
789 187 0.29
790 17 0.03
791 57 0.09
792 36 0.06
793 10 0.02
794 1 0.00
795 19 0.03
797 58 0.09
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (785 bp):
ATATCTTTCTTGAAACATTCTGTGCTTTCATTTAAAACACGACAAAATACAATAAAAATGATACG
AGTGTATTCAATAATTATAAATAAAAAGAAAAATCTATTTGTTGTCAAATTCATTTAAATTTTCA
ATGAACGTTACACATATAAGCTATTCACAAAACTTAAAAAGATGTTCAAAATTTAAAATATCAAC
TCATATATTTATTGAAACATTTCGTTTTCTCATTTAAAACACGACAAAATACAATAAAAATGACA
TCTATGTGTATTTAATAGTTATAAATAAAAAGAAGAATCTGATTGTTGCCAAATCTATTTAAAAT
TTCAGTGAAAGTTAACACATACAAAAAAACTTAGAAAGATGTTCAAAATTTAAAATTAACTCATA
TCTTTCTTGAAACATTCTGCTTTCACTTAAAACACGACAAAATACAATAAAAATGATATATGTAT
GTATTTAATAGTTATAAATAAAAAGAATAACCTGTTTGTTGCCAAATTTATTTAAAATTCTAGTG
AACATTAACATATACAAAAGCCTCGTTCATCAAAACTTAAAAAGATATTCAAAATTTAAAATTAA
CTCATATATTTCTTAAAACATCTCGTGCTTTCATTTAAAACACGACAAAATATAACAAAAATAAT
ATATGTGTATTTAATAGCTATAAATAAAAAGAAGAATATATTTGCTGCCAAATTTATTTAAATTT
TCAGTGAAGATTAACAAATACAAAAGTTTTATTCATCAAAGTTTAGAAAGATGTTCAAAAAAAAA
AACCA
Found at i:49387723 original size:201 final size:199
Alignment explanation
Indices: 49387330--49387918 Score: 734
Period size: 201 Copynumber: 2.9 Consensus size: 199
49387320 CATATACATA
* * *
49387330 AAAACTTAGGAAGATGTTCAAAATTTAAAATTAACTCATATATTTCTTGAAACATTTGTGTTTTC
1 AAAACTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATATTTCTTGAAACATTCGTGCTTTC
* * * * * *
49387395 ATTTGAAACACGACAAGATACAATAAAAATGACACACGTGTGTATTTAATAGTTATAAATAATAA
66 ATTT-AAACATGACAAAATACAATAAAAATGATATATGT-TGTATTTAATAGTTATAAA-AAAAA
* * * * ** *
49387460 GAATAATCTGATTGTTGCCAATTTTATTTAAATTTCCGGTGAACGTTAACATATACAAAAGCCTT
128 GAATAATTTGTTTGTTGCCAAATTTATTTAAAATTCTAGTGAATGTTAACATATACAAAAGCCTT
49387525 GTTCATC
193 GTTCATC
** * *
49387532 AATGCTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATCTTTCTTGAAACGCTTCGTGCTTT
1 AAAACTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATATTTCTTGAAAC-ATTCGTGCTTT
*
49387597 CATTTAAGACATGACAAAATACAATAAAAATGATATATGTATGTATTTAATAGTTAT-AAGAAAA
65 CATTTAA-ACATGACAAAATACAATAAAAATGATATATGT-TGTATTTAATAGTTATAAAAAAAA
*
49387661 GAATAATTTGTTTGTTGCCAAATTTATTTAAAATTCTAGTGAATGTTAACATATATAAAAGCCTT
128 GAATAATTTGTTTGTTGCCAAATTTATTTAAAATTCTAGTGAATGTTAACATATACAAAAGCCTT
*
49387726 GTTTATC
193 GTTCATC
* * * * *
49387733 AAAACTTAGAAAGATATTCAAAATTTCATATTAACTCATATATTTTTTGAAATATCTCGTGCTTT
1 AAAACTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATATTTCTTGAAACAT-TCGTGCTTT
* * *
49387798 CATTTAATACATGACAAAATATAACAAAAATAATATATG-TGTATTTAATAGTTATAAATAAAAA
65 CATTTAA-ACATGACAAAATACAATAAAAATGATATATGTTGTATTTAATAGTTATAAA-AAAAA
* * * * * *
49387862 GAATAATTTGTTTGCTGTCAAGTTTATTT-AAATTTTCAGTGAATATTAACAAATACA
128 GAATAATTTGTTTGTTGCCAAATTTATTTAAAATTCT-AGTGAATGTTAACATATACA
49387919 TCAAAACTCA
Statistics
Matches: 336, Mismatches: 45, Indels: 13
0.85 0.11 0.03
Matches are distributed among these distances:
199 16 0.05
200 9 0.03
201 202 0.60
202 53 0.16
203 56 0.17
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (199 bp):
AAAACTTAGAAAGATGTTCAAAATTTAAAATTAACTCATATATTTCTTGAAACATTCGTGCTTTC
ATTTAAACATGACAAAATACAATAAAAATGATATATGTTGTATTTAATAGTTATAAAAAAAAGAA
TAATTTGTTTGTTGCCAAATTTATTTAAAATTCTAGTGAATGTTAACATATACAAAAGCCTTGTT
CATC
Found at i:49388171 original size:174 final size:173
Alignment explanation
Indices: 49387884--49388514 Score: 829
Period size: 174 Copynumber: 3.7 Consensus size: 173
49387874 TGCTGTCAAG
* * * *
49387884 TTTATTTAAATTTTCAGTGAATA-TTAACAAATACATCAAAACTCAAAAAGATGTTCAAAATTCA
1 TTTATTTAAATTTTCAGTGAACATTTAACATATACATC-AAACTTAAAAAGATGTTCAAAATTTA
* * *
49387948 AAATCAATTCA-TT-TTTTTGAAACATTCTGTGCTTTAGTTTAAAATACGACAAAATATAATAAA
65 AAATCAACTCATTTCTTTTTGAAACGTTCCGTGCTTTAGTTTAAAATACGACAAAATATAATAAA
*
49388011 AATGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAA
130 AACGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAA
*
49388055 TTTATTTAAA-TTTCTAGTGAACATTTAACATATACATCAAACTTAAAAAGATGTTCAAAATTGA
1 TTTATTTAAATTTTC-AGTGAACATTTAACATATACATCAAACTTAAAAAGATGTTCAAAATTTA
*
49388119 AAATTAACTCATTTCGTTTTTGAAACGTTCCGTGCTTTAGTTTAAAATACGACAAAATATAATAA
65 AAATCAACTCATTTC-TTTTTGAAACGTTCCGTGCTTTAGTTTAAAATACGACAAAATATAATAA
* *
49388184 AAACGATATCTGTGCGCATTAAATAGTCATAAATAAAATGAAGAG
129 AAACGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAA
* * *
49388229 TTTATTTAAATTTTCCGTGAACGTTTAACATATACATCAAACTTTAAAAGATGTTCAAAATTTAA
1 TTTATTTAAATTTTCAGTGAACATTTAACATATACATCAAACTTAAAAAGATGTTCAAAATTTAA
*
49388294 AATCAACTCATTTCGTTTTTGAAA-----C--GCTTTAATTTAAAATACGACAAAATATAATAAA
66 AATCAACTCATTTC-TTTTTGAAACGTTCCGTGCTTTAGTTTAAAATACGACAAAATATAATAAA
* *
49388352 AACGATATTTGTGTGCATTAAATAGTCATAAATAAAATGAAAAA
130 AACGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAA
* * ** * * *
49388396 TTTATTTAAAATTTCAGTGAACGTTTAATTTATATATCAAACTTAAAAATATGTTCAAAGTTTAA
1 TTTATTTAAATTTTCAGTGAACATTTAACATATACATCAAACTTAAAAAGATGTTCAAAATTTAA
* * * * * *
49388461 AA-CTAACTTATTTCTTTCTTGGAACGTTTCGTACATTCA-TTTAAAACACGACAA
66 AATC-AACTCATTTCTTT-TTGAAACGTTCCGTGC-TTTAGTTTAAAATACGACAA
49388515 TAATTTACAG
Statistics
Matches: 410, Mismatches: 34, Indels: 29
0.87 0.07 0.06
Matches are distributed among these distances:
166 4 0.01
167 145 0.35
169 1 0.00
170 4 0.01
171 50 0.12
172 16 0.04
174 183 0.45
175 7 0.02
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (173 bp):
TTTATTTAAATTTTCAGTGAACATTTAACATATACATCAAACTTAAAAAGATGTTCAAAATTTAA
AATCAACTCATTTCTTTTTGAAACGTTCCGTGCTTTAGTTTAAAATACGACAAAATATAATAAAA
ACGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAA
Found at i:49388514 original size:341 final size:342
Alignment explanation
Indices: 49387882--49388514 Score: 888
Period size: 341 Copynumber: 1.8 Consensus size: 342
49387872 TTTGCTGTCA
49387882 AGTTTATTTAAATTTTCAGTGAATATTAACAAATACATCAAAACTCAAAAAGATGTTCAAAATTC
1 AGTTTATTTAAATTTTCAGTGAATATTAACAAATACATCAAAACTCAAAAAGATGTTCAAAATTC
* *
49387947 AAAATCAATTCATTTTTTTGAAACATTCTGTGCTTTAGTTTAAAATACGACAAAATATAATAAAA
66 AAAATCAACTCATTTTTTTGAAACA-TC--TGCTTTAATTTAAAATACGACAAAATATAATAAAA
* *
49388012 ATGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAGAATTTATTTAAATTTCTAGTGAAC
128 ACGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAAAATTTATTTAAATTTCTAGTGAAC
*
49388077 ATTTAACATATACATCAAACTTAAAAAGATGTTCAAAATTGAAAATTAACTCATTTCGTTTTTGA
193 ATTTAACATATACATCAAACTTAAAAAGATGTTCAAAATTGAAAACTAACTCATTTCGTTTTTGA
* * *
49388142 AACGTTCCGTGCTTTAGTTTAAAATACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAA
258 AACGTTCCGTACTTCAGTTTAAAACACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAA
49388207 TAGTCATAAATAAAATGAAG
323 TAGTCATAAATAAAATGAAG
* * **
49388227 AGTTTATTTAAATTTTCCGTGAACGT-TTAACATATACATC-AAACTTTAAAAGATGTTCAAAAT
1 AGTTTATTTAAATTTTCAGTGAA--TATTAACAAATACATCAAAACTCAAAAAGATGTTCAAAAT
*
49388290 TTAAAATCAACTCATTTCGTTTTTG-AA-A-C-GCTTTAATTTAAAATACGACAAAATATAATAA
64 TCAAAATCAACTCA-TT--TTTTTGAAACATCTGCTTTAATTTAAAATACGACAAAATATAATAA
*
49388351 AAACGATATTTGTGTGCATTAAATAGTCATAAATAAAATGAAAAATTTATTTAAAATTTC-AGTG
126 AAACGATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAAAATTTATTT-AAATTTCTAGTG
* ** * * * * *
49388415 AACGTTTAATTTATATATCAAACTTAAAAATATGTTCAAAGTTTAAAACTAACTTATTTC-TTTC
190 AACATTTAACATATACATCAAACTTAAAAAGATGTTCAAAATTGAAAACTAACTCATTTCGTTT-
* *
49388479 TTGGAACGTTTCGTACATTCA-TTTAAAACACGACAA
254 TTGAAACGTTCCGTAC-TTCAGTTTAAAACACGACAA
49388515 TAATTTACAG
Statistics
Matches: 256, Mismatches: 24, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
340 3 0.01
341 162 0.63
342 10 0.04
344 1 0.00
345 55 0.21
346 16 0.06
347 3 0.01
348 6 0.02
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.36
Consensus pattern (342 bp):
AGTTTATTTAAATTTTCAGTGAATATTAACAAATACATCAAAACTCAAAAAGATGTTCAAAATTC
AAAATCAACTCATTTTTTTGAAACATCTGCTTTAATTTAAAATACGACAAAATATAATAAAAACG
ATATCTGTGTGCATTAAATAGTCATAAATAAAATGAAAAATTTATTTAAATTTCTAGTGAACATT
TAACATATACATCAAACTTAAAAAGATGTTCAAAATTGAAAACTAACTCATTTCGTTTTTGAAAC
GTTCCGTACTTCAGTTTAAAACACGACAAAATATAATAAAAACGATATCTGTGCGCATTAAATAG
TCATAAATAAAATGAAG
Found at i:49389387 original size:2 final size:2
Alignment explanation
Indices: 49389382--49389415 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
49389372 AAAAAAGCAG
*
49389382 CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
49389416 ATTTTATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
CT
Found at i:49389840 original size:247 final size:247
Alignment explanation
Indices: 49389404--49389897 Score: 988
Period size: 247 Copynumber: 2.0 Consensus size: 247
49389394 CTCTCTCTCT
49389404 CTCTTTCTCTCTATTTTATTTTTTTTCATTTTTAGAAACTGTTCGTTTTTTATTTTTCTGCTTGT
1 CTCTTTCTCTCTATTTTATTTTTTTTCATTTTTAGAAACTGTTCGTTTTTTATTTTTCTGCTTGT
49389469 TTAAGAATAAAAAAAATTGTTGAAAAGGAGGGGAAGGGAGTGGAATGAATCAAATGTGATGGGAA
66 TTAAGAATAAAAAAAATTGTTGAAAAGGAGGGGAAGGGAGTGGAATGAATCAAATGTGATGGGAA
49389534 GTGGAGTTTCTACGCTCTGCCCTTGCTTTAATCCGGTGACAGACCGGTCAAACCGGCCACCAGAG
131 GTGGAGTTTCTACGCTCTGCCCTTGCTTTAATCCGGTGACAGACCGGTCAAACCGGCCACCAGAG
49389599 AATCACGCCGACCTGATCTTTGCTGCATCAGAGCCGTTGGATGAAACCCTCG
196 AATCACGCCGACCTGATCTTTGCTGCATCAGAGCCGTTGGATGAAACCCTCG
49389651 CTCTTTCTCTCTATTTTATTTTTTTTCATTTTTAGAAACTGTTCGTTTTTTATTTTTCTGCTTGT
1 CTCTTTCTCTCTATTTTATTTTTTTTCATTTTTAGAAACTGTTCGTTTTTTATTTTTCTGCTTGT
49389716 TTAAGAATAAAAAAAATTGTTGAAAAGGAGGGGAAGGGAGTGGAATGAATCAAATGTGATGGGAA
66 TTAAGAATAAAAAAAATTGTTGAAAAGGAGGGGAAGGGAGTGGAATGAATCAAATGTGATGGGAA
49389781 GTGGAGTTTCTACGCTCTGCCCTTGCTTTAATCCGGTGACAGACCGGTCAAACCGGCCACCAGAG
131 GTGGAGTTTCTACGCTCTGCCCTTGCTTTAATCCGGTGACAGACCGGTCAAACCGGCCACCAGAG
49389846 AATCACGCCGACCTGATCTTTGCTGCATCAGAGCCGTTGGATGAAACCCTCG
196 AATCACGCCGACCTGATCTTTGCTGCATCAGAGCCGTTGGATGAAACCCTCG
49389898 GCCACTCCTT
Statistics
Matches: 247, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
247 247 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (247 bp):
CTCTTTCTCTCTATTTTATTTTTTTTCATTTTTAGAAACTGTTCGTTTTTTATTTTTCTGCTTGT
TTAAGAATAAAAAAAATTGTTGAAAAGGAGGGGAAGGGAGTGGAATGAATCAAATGTGATGGGAA
GTGGAGTTTCTACGCTCTGCCCTTGCTTTAATCCGGTGACAGACCGGTCAAACCGGCCACCAGAG
AATCACGCCGACCTGATCTTTGCTGCATCAGAGCCGTTGGATGAAACCCTCG
Found at i:49401409 original size:16 final size:17
Alignment explanation
Indices: 49401379--49401411 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
49401369 GACGGCGTAA
49401379 TTTTTATATAATTTATT
1 TTTTTATATAATTTATT
*
49401396 TTTTTA-ATATTTTATT
1 TTTTTATATAATTTATT
49401412 ATATTTGTAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTTTATATAATTTATT
Found at i:49408716 original size:12 final size:12
Alignment explanation
Indices: 49408693--49408724 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
49408683 TATATAATTT
49408693 AAAATT-ATATA
1 AAAATTAATATA
49408704 AAAATTAATATA
1 AAAATTAATATA
49408716 AAAATTAAT
1 AAAATTAAT
49408725 GTGGGCGGGC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:49410731 original size:22 final size:21
Alignment explanation
Indices: 49410698--49410738 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
49410688 TTCTTACTAT
49410698 TTTTCCACTGTTTTCTTGTTG
1 TTTTCCACTGTTTTCTTGTTG
* *
49410719 TTTTCTCATTGTTTTGTTGT
1 TTTTC-CACTGTTTTCTTGT
49410739 CATTTTGCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.05, C:0.15, G:0.15, T:0.66
Consensus pattern (21 bp):
TTTTCCACTGTTTTCTTGTTG
Found at i:49410981 original size:15 final size:14
Alignment explanation
Indices: 49410961--49410991 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
49410951 ATATAATTTT
49410961 AAAAAATTATATATA
1 AAAAAATTA-ATATA
49410976 AAAAAATTAATATA
1 AAAAAATTAATATA
49410990 AA
1 AA
49410992 TGAACTAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAAATTAATATA
Found at i:49426197 original size:6 final size:6
Alignment explanation
Indices: 49426156--49426194 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
49426146 TGTCCTGAAG
* * *
49426156 TTTCCG TTTCCG TTTCCT TTTCCT TTTCCT TTTTCT TTT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTT
49426195 TCTCCTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.00, C:0.28, G:0.05, T:0.67
Consensus pattern (6 bp):
TTTCCT
Found at i:49429899 original size:16 final size:17
Alignment explanation
Indices: 49429875--49429907 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
49429865 TGCTTAGCTA
49429875 CATG-AAAAATTACATG
1 CATGAAAAAATTACATG
*
49429891 CATGGAAAAATTACATG
1 CATGAAAAAATTACATG
49429908 AATAAGGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (17 bp):
CATGAAAAAATTACATG
Found at i:49433251 original size:18 final size:18
Alignment explanation
Indices: 49433216--49433253 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
49433206 CAATTACAGT
*
49433216 AACTTAATGATCACGAAA
1 AACTTAATCATCACGAAA
49433234 AACTTGAATCATCA-GAAA
1 AACTT-AATCATCACGAAA
49433252 AA
1 AA
49433254 GTGACACCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.16, G:0.11, T:0.21
Consensus pattern (18 bp):
AACTTAATCATCACGAAA
Found at i:49434254 original size:20 final size:19
Alignment explanation
Indices: 49434231--49434283 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
49434221 AAATATTTTT
49434231 AAAATTATAAATATGTACA-A
1 AAAATTATAAATAT-T-CATA
* *
49434251 AAAATTAAAAAAATTCATA
1 AAAATTATAAATATTCATA
49434270 AAAATTATATAATA
1 AAAATTATA-AATA
49434284 AACAAAATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 10 0.37
20 15 0.56
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAATTATAAATATTCATA
Found at i:49434392 original size:19 final size:18
Alignment explanation
Indices: 49434363--49434408 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
49434353 GATGGTCACC
*
49434363 TTAAAAAATTAT-TCATT
1 TTAAAAAATTATATAATT
49434380 TGTAAAAATATTATATAATT
1 T-TAAAAA-ATTATATAATT
49434400 TTAAAAAAT
1 TTAAAAAAT
49434409 ATCTTGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 11 0.44
20 5 0.20
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (18 bp):
TTAAAAAATTATATAATT
Found at i:49436073 original size:33 final size:33
Alignment explanation
Indices: 49436035--49436101 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
49436025 AAATCTAACC
*
49436035 CTTAATATTTATCCTTTTTGTCACATTTAGGGG
1 CTTAATATTTACCCTTTTTGTCACATTTAGGGG
49436068 CTTAATATTTACCCTTTTTGTCACATTTAGGGG
1 CTTAATATTTACCCTTTTTGTCACATTTAGGGG
49436101 C
1 C
49436102 GAAGTCAGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.46
Consensus pattern (33 bp):
CTTAATATTTACCCTTTTTGTCACATTTAGGGG
Found at i:49439990 original size:9 final size:9
Alignment explanation
Indices: 49439978--49440011 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
49439968 GCAGCGTCAT
*
49439978 CAGCAGCAG
1 CAGCAGCAA
49439987 CAGCAGCAA
1 CAGCAGCAA
*
49439996 CAACAGCAA
1 CAGCAGCAA
49440005 CAGCAGC
1 CAGCAGC
49440012 CCAAACCGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.41, C:0.35, G:0.24, T:0.00
Consensus pattern (9 bp):
CAGCAGCAA
Found at i:49443432 original size:33 final size:33
Alignment explanation
Indices: 49443390--49443457 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
49443380 TATTGGGCGG
49443390 CTCCTACACATACAATACCATACAATTTTCAAT
1 CTCCTACACATACAATACCATACAATTTTCAAT
49443423 CTCCTACACATACAATACCATACAATTTTCAAT
1 CTCCTACACATACAATACCATACAATTTTCAAT
49443456 CT
1 CT
49443458 TACAACCACG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (33 bp):
CTCCTACACATACAATACCATACAATTTTCAAT
Found at i:49446796 original size:21 final size:24
Alignment explanation
Indices: 49446772--49446822 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
49446762 ATAAAATGAA
49446772 AATA-AGA-TAACCTT-AAATAAT
1 AATACAGAGTAACCTTGAAATAAT
* *
49446793 AATACATAGTAACTTTGAAATAAT
1 AATACAGAGTAACCTTGAAATAAT
49446817 AATACA
1 AATACA
49446823 CCATGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 4 0.16
22 2 0.08
23 6 0.24
24 13 0.52
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (24 bp):
AATACAGAGTAACCTTGAAATAAT
Found at i:49447067 original size:3 final size:3
Alignment explanation
Indices: 49447059--49447092 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
49447049 TAACATTAAA
* *
49447059 AAT AAT AAT AAT AAT AAT AAT GAT AAT AAA AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49447093 TTAAGCTAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:49453218 original size:3 final size:3
Alignment explanation
Indices: 49453205--49453269 Score: 121
Period size: 3 Copynumber: 21.7 Consensus size: 3
49453195 AATTTAAAAC
*
49453205 AAG AGG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
49453253 AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AA
49453270 AGGGAGATGA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:49458681 original size:55 final size:56
Alignment explanation
Indices: 49458610--49458715 Score: 135
Period size: 55 Copynumber: 1.9 Consensus size: 56
49458600 ACAAATTTAA
* * ** *
49458610 TAAAATAAAGTGTTTAAAAATGGGAA-AATGGTTTTTCAGAG-GGAGTTTTTATTGG
1 TAAAATAAAATATTTAAAAA-CCGAATAATGATTTTTCAGAGTGGAGTTTTTATTGG
*
49458665 TAAAATAAAATATTTAAAAACCGAATAATGATTTTTCATAGTGGAGTTTTT
1 TAAAATAAAATATTTAAAAACCGAATAATGATTTTTCAGAGTGGAGTTTTT
49458716 GACAAAACAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
54 3 0.07
55 31 0.72
56 9 0.21
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (56 bp):
TAAAATAAAATATTTAAAAACCGAATAATGATTTTTCAGAGTGGAGTTTTTATTGG
Found at i:49465396 original size:19 final size:17
Alignment explanation
Indices: 49465364--49465448 Score: 58
Period size: 17 Copynumber: 5.1 Consensus size: 17
49465354 CCAATATCTA
49465364 AATTAAAATATAAAATT
1 AATTAAAATATAAAATT
49465381 AATTAATAATTATAAAATCT
1 AATTAA-AA-TATAAAAT-T
*
49465401 AACTT--CATA-AAAA-T
1 AA-TTAAAATATAAAATT
*
49465415 AATT-AAA-ATGAAATT
1 AATTAAAATATAAAATT
49465430 ACATTAAAA-ATAAAATT
1 A-ATTAAAATATAAAATT
49465447 AA
1 AA
49465449 AAATATTACA
Statistics
Matches: 55, Mismatches: 4, Indels: 19
0.71 0.05 0.24
Matches are distributed among these distances:
13 3 0.05
14 7 0.13
15 2 0.04
16 8 0.15
17 19 0.35
18 3 0.05
19 8 0.15
20 3 0.05
21 2 0.04
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (17 bp):
AATTAAAATATAAAATT
Found at i:49486420 original size:113 final size:113
Alignment explanation
Indices: 49486222--49486446 Score: 441
Period size: 113 Copynumber: 2.0 Consensus size: 113
49486212 AGCTTCATTT
*
49486222 TGGATCTTTGTTTACCCAGTTGATGTCATCAAGAGTGTGGTCCAGGTGGATGACTATAGAAACCC
1 TGGATCTTTGTTTACCCAGTTGATGTCATCAAGAGTGTGGTCCAGGTGGATGACTACAGAAACCC
49486287 CAAGTACACTGGCTCCATGAATGCATTTAATAGGATATTAGCCTCAGC
66 CAAGTACACTGGCTCCATGAATGCATTTAATAGGATATTAGCCTCAGC
49486335 TGGATCTTTGTTTACCCAGTTGATGTCATCAAGAGTGTGGTCCAGGTGGATGACTACAGAAACCC
1 TGGATCTTTGTTTACCCAGTTGATGTCATCAAGAGTGTGGTCCAGGTGGATGACTACAGAAACCC
49486400 CAAGTACACTGGCTCCATGAATGCATTTAATAGGATATTAGCCTCAG
66 CAAGTACACTGGCTCCATGAATGCATTTAATAGGATATTAGCCTCAG
49486447 AAGGGGTGAA
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (113 bp):
TGGATCTTTGTTTACCCAGTTGATGTCATCAAGAGTGTGGTCCAGGTGGATGACTACAGAAACCC
CAAGTACACTGGCTCCATGAATGCATTTAATAGGATATTAGCCTCAGC
Found at i:49487693 original size:3 final size:3
Alignment explanation
Indices: 49487685--49487717 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
49487675 GAAACTATCT
*
49487685 TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
49487718 ATTAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:49489772 original size:1 final size:1
Alignment explanation
Indices: 49489766--49489799 Score: 59
Period size: 1 Copynumber: 34.0 Consensus size: 1
49489756 CCAACATGAA
*
49489766 CCCCCCCCCCCCCCCCCCCCACCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
49489800 TTTCACTGCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 31 1.00
ACGTcount: A:0.03, C:0.97, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:49498274 original size:41 final size:41
Alignment explanation
Indices: 49498214--49498296 Score: 139
Period size: 41 Copynumber: 2.0 Consensus size: 41
49498204 GTATATAGTT
49498214 AAAAAGAATAGCATAAAATACACGTGGATTATCATACAACC
1 AAAAAGAATAGCATAAAATACACGTGGATTATCATACAACC
* * *
49498255 AAAAAGAATAGCATGAAATACACGTGGGTTGTCATACAACC
1 AAAAAGAATAGCATAAAATACACGTGGATTATCATACAACC
49498296 A
1 A
49498297 TGTTTAACAA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.48, C:0.17, G:0.16, T:0.19
Consensus pattern (41 bp):
AAAAAGAATAGCATAAAATACACGTGGATTATCATACAACC
Found at i:49501310 original size:5 final size:5
Alignment explanation
Indices: 49501272--49501307 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
49501262 TACAGAGCTA
* *
49501272 GGGTA GGGTT GGGTT GGGTT GGGTT GGGTT GTGTT G
1 GGGTT GGGTT GGGTT GGGTT GGGTT GGGTT GGGTT G
49501308 TGTGCTACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.03, C:0.00, G:0.58, T:0.39
Consensus pattern (5 bp):
GGGTT
Found at i:49504141 original size:19 final size:17
Alignment explanation
Indices: 49504105--49504143 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
49504095 GAAATTAAAA
*
49504105 AAAATAAAATTATGAGT
1 AAAATAAAATTATAAGT
49504122 AAAATAAAATTAAATAAGT
1 AAAATAAAATT--ATAAGT
49504141 AAA
1 AAA
49504144 TATATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
19 8 0.42
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (17 bp):
AAAATAAAATTATAAGT
Found at i:49504913 original size:17 final size:17
Alignment explanation
Indices: 49504888--49504929 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
49504878 ATTAATCTTG
*
49504888 TTTATTATAATA-AATAA
1 TTTAATATAATATAA-AA
49504905 TTTAATATAATATAAAA
1 TTTAATATAATATAAAA
*
49504922 GTTAATAT
1 TTTAATAT
49504930 TCAATATACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
TTTAATATAATATAAAA
Found at i:49504927 original size:44 final size:41
Alignment explanation
Indices: 49504847--49504927 Score: 92
Period size: 43 Copynumber: 1.9 Consensus size: 41
49504837 TTTTATAAAT
* *
49504847 TTTATATAAAAATATTTTAAAAAATCATTAAATTAATCTTG
1 TTTATATAAAAATAATTTAAAAAATCATAAAATTAATCTTG
*
49504888 TTTATTATAATAAATAATTTAATATAAT-ATAAAAGTTAAT
1 TTTA-TATAA-AAATAATTTAA-AAAATCATAAAA-TTAAT
49504928 ATTCAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
41 4 0.12
42 5 0.15
43 15 0.45
44 9 0.27
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (41 bp):
TTTATATAAAAATAATTTAAAAAATCATAAAATTAATCTTG
Found at i:49529729 original size:17 final size:18
Alignment explanation
Indices: 49529690--49529727 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49529680 TATTTTTAAG
**
49529690 AAATATTTTTTTGATAAA
1 AAATATTTTTAAGATAAA
49529708 AAATATTTTTAAGATAAA
1 AAATATTTTTAAGATAAA
49529726 AA
1 AA
49529728 TAATAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
AAATATTTTTAAGATAAA
Found at i:49535533 original size:20 final size:21
Alignment explanation
Indices: 49535495--49535533 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
49535485 ATTCAATTCT
*
49535495 TTTTATTTTCTTTAATTTTCC
1 TTTTATTTTCTCTAATTTTCC
*
49535516 TTTTA-TTTCTCTATTTTT
1 TTTTATTTTCTCTAATTTT
49535534 TTGTTCTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTATTTTCTCTAATTTTCC
Found at i:49537263 original size:16 final size:16
Alignment explanation
Indices: 49537224--49537264 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
49537214 ATAATAAAAA
49537224 TATAATTTTATCATTT
1 TATAATTTTATCATTT
49537240 TA-ATATTTTAT-ATCTT
1 TATA-ATTTTATCAT-TT
49537256 TATAATTTT
1 TATAATTTT
49537265 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 3 0.14
16 18 0.82
17 1 0.05
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTTTATCATTT
Found at i:49542874 original size:18 final size:18
Alignment explanation
Indices: 49542851--49542943 Score: 114
Period size: 18 Copynumber: 5.2 Consensus size: 18
49542841 CCCAACTACT
*
49542851 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
* * *
49542869 GTATACTTGAATAGTGCT
1 GTATACGTGAATAGTACC
*
49542887 GTATACGTAAATAGTACC
1 GTATACGTGAATAGTACC
* * *
49542905 ATATACATGAATAGTGCC
1 GTATACGTGAATAGTACC
49542923 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
49542941 GTA
1 GTA
49542944 AACGGTCGTA
Statistics
Matches: 60, Mismatches: 15, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 60 1.00
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.29
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:49542903 original size:36 final size:36
Alignment explanation
Indices: 49542849--49542943 Score: 145
Period size: 36 Copynumber: 2.6 Consensus size: 36
49542839 ATCCCAACTA
* *
49542849 CTGTATACGTGAACAGTACCGTATACTTGAATAGTG
1 CTGTATACGTGAATAGTACCGTATACATGAATAGTG
* *
49542885 CTGTATACGTAAATAGTACCATATACATGAATAGTG
1 CTGTATACGTGAATAGTACCGTATACATGAATAGTG
*
49542921 CCGTATACGTGAATAGTACCGTA
1 CTGTATACGTGAATAGTACCGTA
49542944 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (36 bp):
CTGTATACGTGAATAGTACCGTATACATGAATAGTG
Found at i:49544335 original size:15 final size:14
Alignment explanation
Indices: 49544317--49544354 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
49544307 AAAAATAGCT
49544317 AAAGAAAAAGAAGAG
1 AAAGAAAAAGAA-AG
49544332 AAAGAAAAA-AAAG
1 AAAGAAAAAGAAAG
*
49544345 AAAGAGAAAG
1 AAAGAAAAAG
49544355 CCATTAGTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAGAAAG
Found at i:49547998 original size:5 final size:5
Alignment explanation
Indices: 49547988--49548054 Score: 125
Period size: 5 Copynumber: 13.4 Consensus size: 5
49547978 TAAATATAAA
49547988 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
*
49548038 TATAT TATAT TGTAT TA
1 TATAT TATAT TATAT TA
49548055 GTTTAGTTTG
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 60 1.00
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:49548060 original size:5 final size:5
Alignment explanation
Indices: 49548052--49548089 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
49548042 TTATATTGTA
*
49548052 TTAGT TTAGT TTGGT TTAGT TTAGT TTAGT TTAGT TTA
1 TTAGT TTAGT TTAGT TTAGT TTAGT TTAGT TTAGT TTA
49548090 ATAATAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.18, C:0.00, G:0.21, T:0.61
Consensus pattern (5 bp):
TTAGT
Found at i:49549448 original size:16 final size:16
Alignment explanation
Indices: 49549410--49549448 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
49549400 TAAGAGATAA
49549410 GAATTGATAGTGTTAT
1 GAATTGATAGTGTTAT
49549426 GAA-TGAT-GTGTTAT
1 GAATTGATAGTGTTAT
49549440 GAAATTGAT
1 G-AATTGAT
49549449 TATTTGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 8 0.38
15 6 0.29
16 7 0.33
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (16 bp):
GAATTGATAGTGTTAT
Found at i:49550473 original size:19 final size:20
Alignment explanation
Indices: 49550443--49550481 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
49550433 AAAGGGACAT
49550443 TATGATTAAATTATGATGTG
1 TATGATTAAATTATGATGTG
*
49550463 TATGA-TAAATTATTATGTG
1 TATGATTAAATTATGATGTG
49550482 ATTGTTCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
TATGATTAAATTATGATGTG
Found at i:49553573 original size:20 final size:20
Alignment explanation
Indices: 49553534--49553584 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
49553524 CGTGTTTGCT
* *
49553534 TTCCGTTTAGCTCTTATGAGC
1 TTCCG-TTAACTCATATGAGC
*
49553555 TTCCGTTAACTCATATGAGT
1 TTCCGTTAACTCATATGAGC
*
49553575 TTCAGTTAAC
1 TTCCGTTAAC
49553585 CCTTTTGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.22, C:0.22, G:0.16, T:0.41
Consensus pattern (20 bp):
TTCCGTTAACTCATATGAGC
Found at i:49553656 original size:28 final size:27
Alignment explanation
Indices: 49553616--49553670 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 27
49553606 CTCTGATGAG
*
49553616 CTTCAGTTAGCCTTCGGGCTTCCGTTT
1 CTTCAGTTAGCCTCCGGGCTTCCGTTT
49553643 NCTTCAGTTAGCCTCCGGGCTTCCGTTT
1 -CTTCAGTTAGCCTCCGGGCTTCCGTTT
49553671 AGCACTTATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.07, C:0.31, G:0.22, T:0.38
Consensus pattern (27 bp):
CTTCAGTTAGCCTCCGGGCTTCCGTTT
Found at i:49553686 original size:21 final size:21
Alignment explanation
Indices: 49553661--49553725 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
49553651 TAGCCTCCGG
49553661 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * * * *
49553682 GCTTCAG-CTA-AACTT-CGG
1 GCTTCCGTTTAGCACTTATGT
49553700 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
49553721 GCTTC
1 GCTTC
49553726 AGCTAAACTT
Statistics
Matches: 31, Mismatches: 10, Indels: 6
0.66 0.21 0.13
Matches are distributed among these distances:
18 7 0.23
19 6 0.19
20 6 0.19
21 12 0.39
ACGTcount: A:0.15, C:0.26, G:0.20, T:0.38
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:49553701 original size:39 final size:39
Alignment explanation
Indices: 49553658--49553743 Score: 172
Period size: 39 Copynumber: 2.2 Consensus size: 39
49553648 AGTTAGCCTC
49553658 CGGGCTTCCGTTTAGCACTTATGTGCTTCAGCTAAACTT
1 CGGGCTTCCGTTTAGCACTTATGTGCTTCAGCTAAACTT
49553697 CGGGCTTCCGTTTAGCACTTATGTGCTTCAGCTAAACTT
1 CGGGCTTCCGTTTAGCACTTATGTGCTTCAGCTAAACTT
49553736 CGGGCTTC
1 CGGGCTTC
49553744 AGATCACGAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.16, C:0.27, G:0.22, T:0.35
Consensus pattern (39 bp):
CGGGCTTCCGTTTAGCACTTATGTGCTTCAGCTAAACTT
Found at i:49553744 original size:18 final size:18
Alignment explanation
Indices: 49553682--49553745 Score: 56
Period size: 18 Copynumber: 3.4 Consensus size: 18
49553672 GCACTTATGT
49553682 GCTTCAGCTAAACTTCGG
1 GCTTCAGCTAAACTTCGG
* * * * *
49553700 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-CTA-AACTT-CGG
49553721 GCTTCAGCTAAACTTCGG
1 GCTTCAGCTAAACTTCGG
49553739 GCTTCAG
1 GCTTCAG
49553746 ATCACGAATG
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
18 14 0.42
19 6 0.18
20 6 0.18
21 7 0.21
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (18 bp):
GCTTCAGCTAAACTTCGG
Found at i:49554013 original size:71 final size:71
Alignment explanation
Indices: 49553890--49554028 Score: 215
Period size: 71 Copynumber: 2.0 Consensus size: 71
49553880 TGATTCAATA
* * *
49553890 GGTAAAGTTTTGATATGAGATAACATGAGTTTGAAATGAATTATCACAGGTATATACCTAAAATA
1 GGTAAAGTTCTAATATGAAATAACATGAGTTTGAAATGAATTATCACAGGTATATACCTAAAATA
49553955 TATAGG
66 TATAGG
* * * *
49553961 GGTAAAGTTCTAATATGAAATAATATGAGTTTGAAATGAATTATTACCGGTATATACCTGAAATA
1 GGTAAAGTTCTAATATGAAATAACATGAGTTTGAAATGAATTATCACAGGTATATACCTAAAATA
49554026 TAT
66 TAT
49554029 GGAAATAATG
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
71 61 1.00
ACGTcount: A:0.41, C:0.07, G:0.18, T:0.34
Consensus pattern (71 bp):
GGTAAAGTTCTAATATGAAATAACATGAGTTTGAAATGAATTATCACAGGTATATACCTAAAATA
TATAGG
Found at i:49554199 original size:107 final size:107
Alignment explanation
Indices: 49554013--49554228 Score: 423
Period size: 107 Copynumber: 2.0 Consensus size: 107
49554003 ATTACCGGTA
49554013 TATACCTGAAATATATGGAAATAATGGTACGTGAAATATTAATATAATGAAATGAATGATAAATG
1 TATACCTGAAATATATGGAAATAATGGTACGTGAAATATTAATATAATGAAATGAATGATAAATG
*
49554078 TTTATAAAGAAACAGCAAAAGAATGATATGTATCATGATATG
66 TTTATAAAGAAACAGCAAAAGAATGATATGTATAATGATATG
49554120 TATACCTGAAATATATGGAAATAATGGTACGTGAAATATTAATATAATGAAATGAATGATAAATG
1 TATACCTGAAATATATGGAAATAATGGTACGTGAAATATTAATATAATGAAATGAATGATAAATG
49554185 TTTATAAAGAAACAGCAAAAGAATGATATGTATAATGATATG
66 TTTATAAAGAAACAGCAAAAGAATGATATGTATAATGATATG
49554227 TA
1 TA
49554229 AAAAAGTAAT
Statistics
Matches: 108, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
107 108 1.00
ACGTcount: A:0.48, C:0.05, G:0.17, T:0.30
Consensus pattern (107 bp):
TATACCTGAAATATATGGAAATAATGGTACGTGAAATATTAATATAATGAAATGAATGATAAATG
TTTATAAAGAAACAGCAAAAGAATGATATGTATAATGATATG
Found at i:49556838 original size:93 final size:93
Alignment explanation
Indices: 49556712--49556896 Score: 352
Period size: 93 Copynumber: 2.0 Consensus size: 93
49556702 AATACTCCCC
49556712 TGTTACTCCATTCGACAGTTCTGACCTCTCTCTACTAAAAATCAATTATCTCATTGTACAGAACT
1 TGTTACTCCATTCGACAGTTCTGACCTCTCTCTACTAAAAATCAATTATCTCATTGTACAGAACT
*
49556777 CGAATAAGGTTCTTATTTATTTTTTTTT
66 CGAATAAGGTTCTTATTTATTTCTTTTT
*
49556805 TGTTATTCCATTCGACAGTTCTGACCTCTCTCTACTAAAAATCAATTATCTCATTGTACAGAACT
1 TGTTACTCCATTCGACAGTTCTGACCTCTCTCTACTAAAAATCAATTATCTCATTGTACAGAACT
49556870 CGAATAAGGTTCTTATTTATTTCTTTT
66 CGAATAAGGTTCTTATTTATTTCTTTT
49556897 AAAACTAGAT
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 90 1.00
ACGTcount: A:0.27, C:0.21, G:0.10, T:0.43
Consensus pattern (93 bp):
TGTTACTCCATTCGACAGTTCTGACCTCTCTCTACTAAAAATCAATTATCTCATTGTACAGAACT
CGAATAAGGTTCTTATTTATTTCTTTTT
Found at i:49561342 original size:18 final size:18
Alignment explanation
Indices: 49561315--49561350 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
49561305 AAATATAATA
* *
49561315 TTAAATAATTATTTTATT
1 TTAAAAAATTATATTATT
49561333 TTAAAAAATTATATTATT
1 TTAAAAAATTATATTATT
49561351 AAAAAATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAAAAAATTATATTATT
Found at i:49561354 original size:16 final size:16
Alignment explanation
Indices: 49561304--49561357 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
49561294 AGGGAGAGAG
*
49561304 AAAA-TATAATATTAA
1 AAAATTATATTATTAA
* *
49561319 ATAATTATTTTATTTTAA
1 AAAATTATATTA--TTAA
49561337 AAAATTATATTATTAA
1 AAAATTATATTATTAA
49561353 AAAAT
1 AAAAT
49561358 ATCACGTGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 3 0.10
16 14 0.45
18 14 0.45
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AAAATTATATTATTAA
Found at i:49566818 original size:2 final size:2
Alignment explanation
Indices: 49566811--49566840 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
49566801 GCGAGTGAAG
49566811 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
49566841 CAAGAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:49569346 original size:16 final size:16
Alignment explanation
Indices: 49569325--49569357 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49569315 GAAATTAATA
49569325 ATAATATTATTAA-ATT
1 ATAATA-TATTAATATT
49569341 ATAATATATTAATATT
1 ATAATATATTAATATT
49569357 A
1 A
49569358 ATATCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAATATATTAATATT
Found at i:49570868 original size:18 final size:19
Alignment explanation
Indices: 49570841--49570879 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
49570831 CTGGACTTTG
*
49570841 ATTTGCTGAACTTTCA-GC
1 ATTTGCTGAAATTTCATGC
*
49570859 ATTTGTTGAAATTTCATGC
1 ATTTGCTGAAATTTCATGC
49570878 AT
1 AT
49570880 GGAATTGCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (19 bp):
ATTTGCTGAAATTTCATGC
Found at i:49574450 original size:3 final size:3
Alignment explanation
Indices: 49574431--49574469 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
49574421 TATTAAATAA
* *
49574431 ATT AAT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
49574470 TGTTTTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:49574641 original size:3 final size:3
Alignment explanation
Indices: 49574633--49574698 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
49574623 TCAAAAGTTA
* * * * *
49574633 TAT TAT TAT T-T TAAT TAT AAT TCT TGT TGT TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
49574678 TAT TGT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT
49574699 CATTTTTTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
2 2 0.04
3 48 0.92
4 2 0.04
ACGTcount: A:0.27, C:0.02, G:0.06, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:49574769 original size:12 final size:12
Alignment explanation
Indices: 49574662--49574769 Score: 57
Period size: 12 Copynumber: 8.7 Consensus size: 12
49574652 ATTCTTGTTG
49574662 TTATTA-TTATT
1 TTATTATTTATT
49574673 GTTATTATTGTTATT
1 -TTATTA-T-TTATT
49574688 ATTATTATTATCATT
1 -TTATTATT-T-ATT
*
49574703 TT-TTATTT-TG
1 TTATTATTTATT
49574713 TT-TTATTTAATAT
1 TTATTATTT-AT-T
*
49574726 TT-TTATTTTGTT
1 TTATTA-TTTATT
49574738 TTATTATTTA-T
1 TTATTATTTATT
49574749 TTATTTATTTATT
1 TTA-TTATTTATT
*
49574762 TTACTATT
1 TTATTATT
49574770 AGCTTGCTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
10 9 0.12
11 4 0.05
12 25 0.32
13 19 0.24
14 7 0.09
15 14 0.18
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.71
Consensus pattern (12 bp):
TTATTATTTATT
Found at i:49576688 original size:19 final size:19
Alignment explanation
Indices: 49576664--49576709 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
49576654 ACGTCTCTTT
49576664 TTTGCATT-CATTTCATGCA
1 TTTGCATTGCATTTCAT-CA
49576683 TTTGCATTGCATTTCATCA
1 TTTGCATTGCATTTCATCA
*
49576702 TATGCATT
1 TTTGCATT
49576710 AAATTTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.48
Consensus pattern (19 bp):
TTTGCATTGCATTTCATCA
Found at i:49576715 original size:19 final size:20
Alignment explanation
Indices: 49576673--49576715 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
49576663 TTTTGCATTC
* **
49576673 ATTTCATGCATTTGCATTGC
1 ATTTCATGCATATGCATTAA
49576693 ATTTCAT-CATATGCATTAA
1 ATTTCATGCATATGCATTAA
49576712 ATTT
1 ATTT
49576716 TATAAAAGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (20 bp):
ATTTCATGCATATGCATTAA
Found at i:49581436 original size:31 final size:32
Alignment explanation
Indices: 49581380--49581441 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
49581370 TACATTTGTT
*
49581380 ATAATTTAATATATTTATTACATAAAAATCTC
1 ATAATATAATATATTTATTACATAAAAATCTC
*
49581412 ATAATATAAT-TATTTAATTA-ATAAATATCT
1 ATAATATAATATATTT-ATTACATAAAAATCT
49581442 TATTTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (32 bp):
ATAATATAATATATTTATTACATAAAAATCTC
Found at i:49581973 original size:13 final size:14
Alignment explanation
Indices: 49581955--49581983 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
49581945 GATTAACTTC
49581955 ATAAATATTTT-TA
1 ATAAATATTTTCTA
49581968 ATAAATATTTTCTA
1 ATAAATATTTTCTA
49581982 AT
1 AT
49581984 CCATTTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAAATATTTTCTA
Found at i:49583321 original size:14 final size:15
Alignment explanation
Indices: 49583299--49583327 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
49583289 AAAAAATGGG
49583299 AAGAGAAAAGAAAAA
1 AAGAGAAAAGAAAAA
49583314 AAGA-AAAAGAAAAA
1 AAGAGAAAAGAAAAA
49583328 GAAAAATGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAGAGAAAAGAAAAA
Found at i:49584235 original size:44 final size:43
Alignment explanation
Indices: 49584168--49584604 Score: 242
Period size: 44 Copynumber: 9.7 Consensus size: 43
49584158 GATCAAAACA
*
49584168 AATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAATTAC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTAC
* * ***
49584211 GAATATTATCTCCCTAAAGTTGCAGTGGAGCAAACTGAAGA-TAGC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAA-ATTA-C
* * * *
49584256 GAATCTTATTTCCCTAAAGTTGCAGTGGAACTTATTGAAGCT-ATAATTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGC--A--G--GTTGA-AATTAC
* * * *
49584306 AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATT--AA-CAC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTAC
* * * *
49584347 AAACCTTATCTTCCTGAAGTTGCAATGGAGCAGGTTAAAATTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTAC
** *
49584391 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAAC
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAA-ATTAC
* * * ** *
49584436 GAATCTTATTTCCCTGAAGTCGTAGTGGAATATGTTGAAGCTATAAATTAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTT---G----AAATTAC
* * * * *
49584487 AGATCTTATCTCTCTGAAATTGCAGTAGAGCA-GATCAAA--AC
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTAC
* * * * *
49584528 AAATATTATCTCCTTAAAGTTGTAGTGGAGCAGGTTGAAATCAC
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTAC
*
49584572 AAGTCTTATCTTCCTGAAGTTGCAGTGGAGCAG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAG
49584605 ATTAAAACGA
Statistics
Matches: 296, Mismatches: 66, Indels: 62
0.70 0.16 0.15
Matches are distributed among these distances:
41 55 0.19
42 9 0.03
43 9 0.03
44 94 0.32
45 59 0.20
46 3 0.01
47 1 0.00
48 2 0.01
49 1 0.00
50 30 0.10
51 31 0.10
52 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTAC
Found at i:49584476 original size:180 final size:181
Alignment explanation
Indices: 49584157--49584605 Score: 672
Period size: 180 Copynumber: 2.5 Consensus size: 181
49584147 CAATATAGCA
*
49584157 AGATCAAAACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACGAA-TATTATC
1 AGATCAAAACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAATTAC-AAGTCTTATC
* * * *
49584221 TCCCTAAAGTTGCAGTGGAGCAAACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAA
65 TCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTAAAGTCGCAGTGGAA
*
49584286 CTTATTGAAGCTAT-AATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGC
130 CTTATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGCAGTAGAGC
* * * * *
49584337 AGATTAACACAAACCTTATCTTCCTGAAGTTGCAATGGAGCAGGTTAAAATTACAAGTCTTATCT
1 AGATCAAAACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCT
* *
49584402 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTGAAGTCGTAGTGGAA-
66 CCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTAAAGTCGCAGTGGAAC
*
49584466 TATGTTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGCAGTAGAGC
131 T-TATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGCAGTAGAGC
* * * *
49584518 AGATCAAAACAAATATTATC-TCCTTAAAGTTGTAGTGGAGCAGGTTGAAATCACAAGTCTTATC
1 AGATCAAAACAAATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATC
*
49584582 TTCCTGAAGTTGCAGTGGAGCAGA
65 TCCCTGAAGTTGCAGTGGAGCAGA
49584606 TTAAAACGAC
Statistics
Matches: 241, Mismatches: 24, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
179 3 0.01
180 128 0.53
181 110 0.46
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (181 bp):
AGATCAAAACAAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCT
CCCTGAAGTTGCAGTGGAGCAGACTGAAGATAACGAATCTTATTTCCCTAAAGTCGCAGTGGAAC
TTATTGAAGCTATAAATTACAGATCTTATCTCTCTGAAATTGCAGTAGAGC
Found at i:49586214 original size:3 final size:3
Alignment explanation
Indices: 49586206--49586365 Score: 119
Period size: 3 Copynumber: 53.0 Consensus size: 3
49586196 TTTTAGCTAC
* * * *
49586206 ATT ATT ATT A-A ATT AATT ACT ATT ACT ATT ATT ATT ATT ACT ATTT
1 ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
* * * * *
49586252 ATT ATT ATTT ATT ACT ATT ATC ATT ATT CTT ATT ATT AGT ATT ATC
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * * * *
49586298 ATG CTT ATT ATT ATT ACT ATT ATT AAT A-T GTT ATT ATT CTTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT
*
49586343 -TT ATT ATT TTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
49586366 TGTTTTATTT
Statistics
Matches: 120, Mismatches: 30, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
2 4 0.03
3 106 0.88
4 10 0.08
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:49586255 original size:10 final size:10
Alignment explanation
Indices: 49586221--49586270 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
49586211 TATTAAATTA
49586221 ATTACTATTACT
1 ATTACTATT--T
*
49586233 ATTATTA-TT
1 ATTACTATTT
49586242 ATTACTATTT
1 ATTACTATTT
*
49586252 ATTATTATTT
1 ATTACTATTT
49586262 ATTACTATT
1 ATTACTATT
49586271 ATCATTATTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 7 0.21
10 19 0.58
11 1 0.03
12 6 0.18
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTACTATTT
Found at i:49586539 original size:15 final size:15
Alignment explanation
Indices: 49586516--49586562 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
49586506 TTTTTCAAAA
49586516 TTTATATTATTATTAT
1 TTTA-ATTATTATTAT
* *
49586532 TTTAATTATAATTCT
1 TTTAATTATTATTAT
49586547 TGTT-ATTATTATTAT
1 T-TTAATTATTATTAT
49586562 T
1 T
49586563 ATCATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 20 0.77
16 6 0.23
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (15 bp):
TTTAATTATTATTAT
Found at i:49588669 original size:3 final size:3
Alignment explanation
Indices: 49588655--49588687 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
49588645 TCACGCCATA
*
49588655 AAT AAC AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
49588688 TTAAAAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:49591369 original size:17 final size:16
Alignment explanation
Indices: 49591336--49591370 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
49591326 TTAATTTTTA
49591336 TTATATAAAAAATATT
1 TTATATAAAAAATATT
* *
49591352 TTATATTAAAAATAAT
1 TTATATAAAAAATATT
49591368 TTA
1 TTA
49591371 AAAATTCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTATATAAAAAATATT
Found at i:49591395 original size:26 final size:25
Alignment explanation
Indices: 49591366--49591446 Score: 64
Period size: 27 Copynumber: 3.3 Consensus size: 25
49591356 ATTAAAAATA
*
49591366 ATTTAAAAAT-TCTTAAAAATATATAT
1 ATTTAAAAATAT-TTAAAAA-ATAGAT
*
49591392 ATTTTTAAAATATTTAAAAAATAGAT
1 A-TTTAAAAATATTTAAAAAATAGAT
**
49591418 A-TT-AAAAT-TTTATCAAATA-AT
1 ATTTAAAAATATTTAAAAAATAGAT
49591439 ATTTAAAA
1 ATTTAAAA
49591447 GTTATAAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
21 3 0.06
22 11 0.23
23 8 0.17
24 2 0.04
26 7 0.15
27 15 0.32
28 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.42
Consensus pattern (25 bp):
ATTTAAAAATATTTAAAAAATAGAT
Found at i:49591435 original size:22 final size:23
Alignment explanation
Indices: 49591359--49591446 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 23
49591349 ATTTTATATT
*
49591359 AAAAATAAT-TTAAAAAT-TCTTA
1 AAAAATAATATTTAAAATAT-TTA
49591381 AAAATATATATATTTTTAAAATATTTA
1 AAAA-ATA-ATA--TTTAAAATATTTA
49591408 AAAAATAGATA-TTAAAAT-TTTA
1 AAAAATA-ATATTTAAAATATTTA
**
49591430 TCAAATAATATTTAAAA
1 AAAAATAATATTTAAAA
49591447 GTTATAAAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 14
0.75 0.05 0.19
Matches are distributed among these distances:
21 3 0.05
22 19 0.35
23 10 0.18
24 2 0.04
26 6 0.11
27 14 0.25
28 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (23 bp):
AAAAATAATATTTAAAATATTTA
Found at i:49591451 original size:21 final size:21
Alignment explanation
Indices: 49591409--49591458 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
49591399 AAATATTTAA
*
49591409 AAAATAGATATTAAAATTTTAT
1 AAAATA-ATATTAAAATGTTAT
*
49591431 CAAATAATATTTAAAA-GTTAT
1 AAAATAATA-TTAAAATGTTAT
49591452 AAAATAA
1 AAAATAA
49591459 AACTCATTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (21 bp):
AAAATAATATTAAAATGTTAT
Found at i:49591501 original size:13 final size:13
Alignment explanation
Indices: 49591485--49591520 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
49591475 ATAAAATTAG
49591485 AAAATTAAAACAA
1 AAAATTAAAACAA
* *
49591498 AAAATTAATATAA
1 AAAATTAAAACAA
49591511 AAAATTAAAA
1 AAAATTAAAA
49591521 ACCGAACTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (13 bp):
AAAATTAAAACAA
Found at i:49591997 original size:3 final size:3
Alignment explanation
Indices: 49591989--49592019 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
49591979 AAAAACACTC
49591989 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49592020 GACATCTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49595411 original size:16 final size:18
Alignment explanation
Indices: 49595371--49595413 Score: 56
Period size: 16 Copynumber: 2.6 Consensus size: 18
49595361 TGCACTGTCA
49595371 TTTT-ATTTTTCTATCCC
1 TTTTAATTTTTCTATCCC
*
49595388 TTTCAATTTTTC-AT-CC
1 TTTTAATTTTTCTATCCC
49595404 TTTTAATTTT
1 TTTTAATTTT
49595414 CTTTTCACTC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 11 0.48
17 5 0.22
18 7 0.30
ACGTcount: A:0.16, C:0.19, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAATTTTTCTATCCC
Found at i:49599857 original size:26 final size:26
Alignment explanation
Indices: 49599821--49599873 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
49599811 TTTAAAAATG
49599821 TAAAAAATTAATCTAATTACTAAAAA
1 TAAAAAATTAATCTAATTACTAAAAA
49599847 TAAAAAATTAATCTAATTACTAAAAA
1 TAAAAAATTAATCTAATTACTAAAAA
49599873 T
1 T
49599874 TTACAAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (26 bp):
TAAAAAATTAATCTAATTACTAAAAA
Found at i:49603512 original size:27 final size:27
Alignment explanation
Indices: 49603482--49603536 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
49603472 TGACTCAGTG
49603482 ACTAAAATATTACAACACGTTAATGTA
1 ACTAAAATATTACAACACGTTAATGTA
* *
49603509 ACTAAAATGTTACAACATGTTAATGTA
1 ACTAAAATATTACAACACGTTAATGTA
49603536 A
1 A
49603537 GTGATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (27 bp):
ACTAAAATATTACAACACGTTAATGTA
Found at i:49605988 original size:9 final size:9
Alignment explanation
Indices: 49605976--49606000 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49605966 TTTTCCCCTT
49605976 TTTTCTTTC
1 TTTTCTTTC
49605985 TTTTCTTTC
1 TTTTCTTTC
49605994 TTTTCTT
1 TTTTCTT
49606001 CCTTCCCTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTCTTTC
Found at i:49608015 original size:19 final size:19
Alignment explanation
Indices: 49607993--49608031 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
49607983 TTTTAAATAG
*
49607993 ATACACATGTATTAATAAT
1 ATACACATGTATAAATAAT
49608012 ATACACATGTATAAATAAT
1 ATACACATGTATAAATAAT
49608031 A
1 A
49608032 AATAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.33
Consensus pattern (19 bp):
ATACACATGTATAAATAAT
Found at i:49608908 original size:15 final size:15
Alignment explanation
Indices: 49608885--49608928 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
49608875 TATCAAATTT
49608885 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
49608900 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
49608915 ATATTGATTGAAAT
1 ATATTGATTGAAAT
49608929 ATAAAATATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:49609591 original size:18 final size:19
Alignment explanation
Indices: 49609568--49609608 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
49609558 AATGAAATGA
49609568 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
49609586 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
49609605 GAAA
1 GAAA
49609609 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:49609606 original size:13 final size:13
Alignment explanation
Indices: 49609556--49609595 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
49609546 TTGAGCTATT
49609556 AGAA-TGAAA-TG
1 AGAATTGAAATTG
49609567 AGAAATTG-AATTG
1 AG-AATTGAAATTG
49609580 AGAATTGAAATTG
1 AGAATTGAAATTG
49609593 AGA
1 AGA
49609596 TATGAGATTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 2 0.08
12 9 0.36
13 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (13 bp):
AGAATTGAAATTG
Found at i:49614314 original size:39 final size:40
Alignment explanation
Indices: 49614189--49614314 Score: 202
Period size: 40 Copynumber: 3.2 Consensus size: 40
49614179 GGACTAAGAT
*
49614189 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTG-CTATATCCGGGCTAAGTC
*
49614229 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
*
49614269 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
49614308 CCGAAGG
1 CCGAAGG
49614315 TACTTGGGTT
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 15 0.19
40 65 0.80
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGTC
Found at i:49617295 original size:150 final size:150
Alignment explanation
Indices: 49617024--49617323 Score: 521
Period size: 150 Copynumber: 2.0 Consensus size: 150
49617014 AGGATTTAGA
*
49617024 GATGTTACCACCAGATCTGAGGCTCGTGCTCCTGCTAGAGCTTATACTATACGTGCACGCGAGGA
1 GATGTTACCACCAGATCTGAGGCTCATGCTCCTGCTAGAGCTTATACTATACGTGCACGCGAGGA
* * * *
49617089 TGCTTCCTCGCTAGATGTTATTACCGGTACTTTTACTCTCTTTGATACTAATGTGATTGCTTTGA
66 TGCTTCATCGCTAGATGTTATTACCGATACATTCACTCTCTTTGATACTAATGTGATTGCTTTGA
49617154 TTGACCCTGGTTCTACTCAT
131 TTGACCCTGGTTCTACTCAT
*
49617174 GATGTTACCACCAGATCTGAGGCTCATGCTCCTGCTAGAGCTTATGCTATACGTGCACGCGAGGA
1 GATGTTACCACCAGATCTGAGGCTCATGCTCCTGCTAGAGCTTATACTATACGTGCACGCGAGGA
*
49617239 TGCTTCATCGCCT-GATGTTATTACCGATACATTCACTCTCTTTGATACTGATGTGATTGCTTTG
66 TGCTTCATCG-CTAGATGTTATTACCGATACATTCACTCTCTTTGATACTAATGTGATTGCTTTG
49617303 ATTGACCCTGGTTCTACTCAT
130 ATTGACCCTGGTTCTACTCAT
49617324 TCTTATATAT
Statistics
Matches: 142, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
150 140 0.99
151 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (150 bp):
GATGTTACCACCAGATCTGAGGCTCATGCTCCTGCTAGAGCTTATACTATACGTGCACGCGAGGA
TGCTTCATCGCTAGATGTTATTACCGATACATTCACTCTCTTTGATACTAATGTGATTGCTTTGA
TTGACCCTGGTTCTACTCAT
Found at i:49627103 original size:29 final size:29
Alignment explanation
Indices: 49627070--49627132 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
49627060 CAGCATATAA
49627070 AGTAA-AAAT-ATATAAAATATATATTTATT
1 AGTAATAAATGATATAAAAT-TA-ATTTATT
*
49627099 AGTAATAAATGATATTAAATTAATTTATT
1 AGTAATAAATGATATAAAATTAATTTATT
49627128 A-TAAT
1 AGTAAT
49627133 TATATTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 4 0.13
29 13 0.42
30 6 0.19
31 8 0.26
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (29 bp):
AGTAATAAATGATATAAAATTAATTTATT
Found at i:49627166 original size:16 final size:16
Alignment explanation
Indices: 49627128--49627162 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
49627118 TTAATTTATT
*
49627128 ATAATTATATTATAAG
1 ATAATTATATGATAAG
49627144 ATAATTATATGATAA-
1 ATAATTATATGATAAG
49627159 ATAA
1 ATAA
49627163 ATTAAATTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (16 bp):
ATAATTATATGATAAG
Found at i:49633783 original size:17 final size:17
Alignment explanation
Indices: 49633746--49633779 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
49633736 AAGATATTTG
*
49633746 ATTAAACATGATATATA
1 ATTAAAAATGATATATA
49633763 ATTAAAAAT-ATATATA
1 ATTAAAAATGATATATA
49633779 A
1 A
49633780 ATTATTTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (17 bp):
ATTAAAAATGATATATA
Found at i:49633916 original size:19 final size:17
Alignment explanation
Indices: 49633884--49633920 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
49633874 ATAAGATTCA
49633884 AATATTTATTATTTTAT
1 AATATTTATTATTTTAT
49633901 AATATTTTATTTATTTTAT
1 AATA-TTTA-TTATTTTAT
49633920 A
1 A
49633921 TTTTCAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.22
18 4 0.22
19 10 0.56
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
AATATTTATTATTTTAT
Found at i:49634624 original size:20 final size:20
Alignment explanation
Indices: 49634588--49634625 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
49634578 TAAAGTTCTG
*
49634588 TAAAAATATATACAAAATTA
1 TAAAAATATATAAAAAATTA
*
49634608 TAAAAATATTTAAAAAAT
1 TAAAAATATATAAAAAAT
49634626 AAATAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAATATATAAAAAATTA
Found at i:49635791 original size:28 final size:28
Alignment explanation
Indices: 49635760--49635817 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
49635750 TTGTGTAATT
49635760 TTTTTTATTTTTAAGAATTAAGTTTAAA
1 TTTTTTATTTTTAAGAATTAAGTTTAAA
49635788 TTTTTTATTTTTAAGAATTAAGTTTAAA
1 TTTTTTATTTTTAAGAATTAAGTTTAAA
49635816 TT
1 TT
49635818 GATAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (28 bp):
TTTTTTATTTTTAAGAATTAAGTTTAAA
Found at i:49644342 original size:938 final size:936
Alignment explanation
Indices: 49642552--49644425 Score: 3615
Period size: 938 Copynumber: 2.0 Consensus size: 936
49642542 TTCAGTGAAT
* *
49642552 TAAAAGCAACCCAACAAATTACAATAAAACTGAAAATGGGGGAGCCAATTTCGACATCAGCTTCC
1 TAAAAGCAACCCAACAAATTACAAAAAAACTGAAAATGGGGAAGCCAATTTCGACATCAGCTTCC
49642617 TCAGAAAAGCCGAATCACGAAAAGAAAAGCGCCTCCTGCAGGCTTCCCTTTCCCTTTTAACGCCG
66 TCAGAAAAGCCGAATCACGAAAAGAAAAGCGCCTCCTGCAGGCTTCCCTTTCCCTTTTAACGCCG
49642682 CTCTCTCTTTCGGCCGTTAAGCCGCCCGTTGTCTGTTTCTAAGTTCCCTCCTCTCTATTTTCTTC
131 CTCTCTCTTTCGGCCGTTAAGCCGCCCGTTGTCTGTTTCTAAGTTCCCTCCTCTCTATTTTCTTC
49642747 TCATATCAATCCTCTTTTATATTTCAAATTTCGCAAATATCTAATGCCGCAAATTAACCCTGCCT
196 TCATATCAATCCTCTTTTATATTTCAAATTTCGCAAATATCTAATGCCGCAAATTAACCCTGCCT
** * *
49642812 CTAAACCCTAGAGTCCCCCCCTTTTTCACTTATCGGTTTTATTTTATACTTTAATTAATATTATT
261 CTAAACCCTAGAGTCCCCCCCCCTTTCACTTATCGGCTTTACTTTATACTTTAATTAATATTATT
49642877 ATTTCTTTGATTTTGTGACGTGGAATGGATGGAGTGAGTAGCAGTAGCAACAACCAAACCGATGC
326 ATTTCTTTGATTTTGTGACGTGGAATGGATGGAGTGAGTAGCAGTAGCAACAACCAAACCGATGC
49642942 ATCGACGAGCGGCGGAGGAACCCAAACAGCAACACAACCTCAGCCAATGCCCCAGCCGGTGGCAG
391 ATCGACGAGCGGCGGAGGAACCCAAACAGCAACACAACCTCAGCCAATGCCCCAGCCGGTGGCAG
*
49643007 GGAATAGTGCAAACGGGCCACCGCCTTTCCTTCGCAAGACTTACGATATGGTAGATGATCCTGCC
456 GGAATAGTGCAAACGGGCCACCGCCTTTCCTTAGCAAGACTTACGATATGGTAGATGATCCTGCC
49643072 ACCGATGCCATCGTTTCTTGGAGCCCAACCAACAATAGCTTTGTTGTTTGGAACCCGCCGGAGTT
521 ACCGATGCCATCGTTTCTTGGAGCCCAACCAACAATAGCTTTGTTGTTTGGAACCCGCCGGAGTT
49643137 CGCTCGGGATCTTTTGCCCAAGTATTTTAAGCACAACAACTTCTCGAGCTTTGTCAGGCAACTAA
586 CGCTCGGGATCTTTTGCCCAAGTATTTTAAGCACAACAACTTCTCGAGCTTTGTCAGGCAACTAA
49643202 ACACCTATGTACGCCTTAGTAGTTAACTCTTGCTTAGTGTTTTGAACTTACCTTTATCAGAAAAA
651 ACACCTATGTACGCCTTAGTAGTTAACTCTTGCTTAGTGTTTTGAACTTACCTTTATCAGAAAAA
49643267 AAATGTAGGAAATTTTAATTGATATTGTCTCTTTTAGTTTGACTTGTGAAATATTTGATTTCCTT
716 AAATGTAGGAAATTTTAATTGATATTGTCTCTTTTAGTTTGACTTGTGAAATATTTGATTTCCTT
49643332 GATGATAAGGTTTTATTGCGGATTTGACATTGCTCCTAATCGAGTTAAATGCTTTGGAAGTGGTC
781 GATGATAAGGTTTTATTGCGGATTTGACATTGCTCCTAATCGAGTTAAATGCTTTGGAAGTGGTC
49643397 GGCTCTAAAGCCATTTCTGAGAAGGTTTAGGAAAGCAACTATCGTAGAGGATAAGTTTTAGGAAT
846 GGCTCTAAAGCCATTTCTGAGAAGGTTTAGGAAAGCAACTATCGTAGAGGATAAGTTTTAGGAAT
49643462 CTTTTATGTGAAATTAAATTTAGAGG
911 CTTTTATGTGAAATTAAATTTAGAGG
*
49643488 NTAAAAGCACCCCAACAAATTACAAAAAAAC-GAAAAATGGGGAAGCCAATTTCGACATCAGCTT
1 -TAAAAGCAACCCAACAAATTACAAAAAAACTG-AAAATGGGGAAGCCAATTTCGACATCAGCTT
49643552 CCTCAGAAAAGCCGAATCACGAAAAGAAAAGCGCCTCCTGCAGGCTTCCCTTTCCCTTTTAACGC
64 CCTCAGAAAAGCCGAATCACGAAAAGAAAAGCGCCTCCTGCAGGCTTCCCTTTCCCTTTTAACGC
49643617 CGCTCTCTCTTTCGGCCGTTAAGCCGCCCGTTGTCTGTTTCTAAGTTCCCTCCTCTCTATTTTCT
129 CGCTCTCTCTTTCGGCCGTTAAGCCGCCCGTTGTCTGTTTCTAAGTTCCCTCCTCTCTATTTTCT
49643682 TCTCATATCAATCCTCTTTTATATTTCAAATTTCGCAAATATCTAATGCCGCAAATTAACCCTGC
194 TCTCATATCAATCCTCTTTTATATTTCAAATTTCGCAAATATCTAATGCCGCAAATTAACCCTGC
* *
49643747 CTCTAAACCCTAGAGTCCCCCCCCCCTTTCACTTCTCGGCTTTACTTTATACTTTAATTATTATT
259 CTCTAAACCCTAGAGT-CCCCCCCCCTTTCACTTATCGGCTTTACTTTATACTTTAATTAATATT
49643812 ATTATTTCTTTGATTTTGTGACGTGGAATGGATGGAGTGAGTAGCAGTAGCAACAACCAAACCGA
323 ATTATTTCTTTGATTTTGTGACGTGGAATGGATGGAGTGAGTAGCAGTAGCAACAACCAAACCGA
49643877 TGCATCGACGAGCGGCGGAGGAACCCAAACAGCAACACAACCTCAGCCAATGCCCCAGCCGGTGG
388 TGCATCGACGAGCGGCGGAGGAACCCAAACAGCAACACAACCTCAGCCAATGCCCCAGCCGGTGG
*
49643942 CAGGGCATAGTGCAAACGGGCCACCGCCTTTCCTTAGCAAGACTTACGATATGGTAGATGATCCT
453 CAGGGAATAGTGCAAACGGGCCACCGCCTTTCCTTAGCAAGACTTACGATATGGTAGATGATCCT
49644007 GCCACCGATGCCATCGTTTCTTGGAGCCCAACCAACAATAGCTTTGTTGTTTGGAACCCGCCGGA
518 GCCACCGATGCCATCGTTTCTTGGAGCCCAACCAACAATAGCTTTGTTGTTTGGAACCCGCCGGA
49644072 GTTCGCTCGGGATCTTTTGCCCAAGTATTTTAAGCACAACAACTTCTCGAGCTTTGTCAGGCAAC
583 GTTCGCTCGGGATCTTTTGCCCAAGTATTTTAAGCACAACAACTTCTCGAGCTTTGTCAGGCAAC
49644137 TAAACACCTATGTACGCCTTAGTAGTTAACTCTTGCTTAGTGTTTTGAACTTACCTTTATCAGAA
648 TAAACACCTATGTACGCCTTAGTAGTTAACTCTTGCTTAGTGTTTTGAACTTACCTTTATCAGAA
49644202 AAAAAATGTAGGAAATTTTAATTGATATTGTCTCTTTTAGTTTGACTTGTGAAATATTTGATTTC
713 AAAAAATGTAGGAAATTTTAATTGATATTGTCTCTTTTAGTTTGACTTGTGAAATATTTGATTTC
49644267 CTTGATGATAAGGTTTTATTGCGGATTTGACATTGCTCCTAATCGAGTTAAATGCTTTGGAAGTG
778 CTTGATGATAAGGTTTTATTGCGGATTTGACATTGCTCCTAATCGAGTTAAATGCTTTGGAAGTG
49644332 GTCGGCTCTAAAGCCATTTCTGAGAAGGTTTAGGAAAGCAACTATCGTAGAGGATAAGTTTTAGG
843 GTCGGCTCTAAAGCCATTTCTGAGAAGGTTTAGGAAAGCAACTATCGTAGAGGATAAGTTTTAGG
49644397 AATCTTTTATGTGAAATTAAATTTAGAGG
908 AATCTTTTATGTGAAATTAAATTTAGAGG
49644426 AACAAGTTTA
Statistics
Matches: 924, Mismatches: 11, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
936 1 0.00
937 269 0.29
938 654 0.71
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.31
Consensus pattern (936 bp):
TAAAAGCAACCCAACAAATTACAAAAAAACTGAAAATGGGGAAGCCAATTTCGACATCAGCTTCC
TCAGAAAAGCCGAATCACGAAAAGAAAAGCGCCTCCTGCAGGCTTCCCTTTCCCTTTTAACGCCG
CTCTCTCTTTCGGCCGTTAAGCCGCCCGTTGTCTGTTTCTAAGTTCCCTCCTCTCTATTTTCTTC
TCATATCAATCCTCTTTTATATTTCAAATTTCGCAAATATCTAATGCCGCAAATTAACCCTGCCT
CTAAACCCTAGAGTCCCCCCCCCTTTCACTTATCGGCTTTACTTTATACTTTAATTAATATTATT
ATTTCTTTGATTTTGTGACGTGGAATGGATGGAGTGAGTAGCAGTAGCAACAACCAAACCGATGC
ATCGACGAGCGGCGGAGGAACCCAAACAGCAACACAACCTCAGCCAATGCCCCAGCCGGTGGCAG
GGAATAGTGCAAACGGGCCACCGCCTTTCCTTAGCAAGACTTACGATATGGTAGATGATCCTGCC
ACCGATGCCATCGTTTCTTGGAGCCCAACCAACAATAGCTTTGTTGTTTGGAACCCGCCGGAGTT
CGCTCGGGATCTTTTGCCCAAGTATTTTAAGCACAACAACTTCTCGAGCTTTGTCAGGCAACTAA
ACACCTATGTACGCCTTAGTAGTTAACTCTTGCTTAGTGTTTTGAACTTACCTTTATCAGAAAAA
AAATGTAGGAAATTTTAATTGATATTGTCTCTTTTAGTTTGACTTGTGAAATATTTGATTTCCTT
GATGATAAGGTTTTATTGCGGATTTGACATTGCTCCTAATCGAGTTAAATGCTTTGGAAGTGGTC
GGCTCTAAAGCCATTTCTGAGAAGGTTTAGGAAAGCAACTATCGTAGAGGATAAGTTTTAGGAAT
CTTTTATGTGAAATTAAATTTAGAGG
Found at i:49646002 original size:47 final size:47
Alignment explanation
Indices: 49645903--49646032 Score: 145
Period size: 47 Copynumber: 2.8 Consensus size: 47
49645893 GTTGTAGACA
* * *
49645903 GTAGTTTGGAAGATATTCATCTGAAATCTTATAGTTCTGTTTACACT
1 GTAGTTTGGAAAATGTTCATCTGAAATCTTATAGTACTGTTTACACT
* * * **
49645950 ATAGTTTGGAAAATGCTCATCTGAAATCTTATAGTACTTTTTATGCT
1 GTAGTTTGGAAAATGTTCATCTGAAATCTTATAGTACTGTTTACACT
* * *
49645997 GTAGTTCGGGAAATGTTCATCTCAAAT-TCTATAGTA
1 GTAGTTTGGAAAATGTTCATCTGAAATCT-TATAGTA
49646033 TTGTGTAGAT
Statistics
Matches: 69, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
46 1 0.01
47 68 0.99
ACGTcount: A:0.29, C:0.13, G:0.17, T:0.41
Consensus pattern (47 bp):
GTAGTTTGGAAAATGTTCATCTGAAATCTTATAGTACTGTTTACACT
Found at i:49659021 original size:15 final size:17
Alignment explanation
Indices: 49659000--49659039 Score: 66
Period size: 15 Copynumber: 2.5 Consensus size: 17
49658990 TAATTTTTTA
49659000 AAAATTATTAAAAT-AT
1 AAAATTATTAAAATAAT
49659016 -AAATTATTAAAATAAT
1 AAAATTATTAAAATAAT
49659032 AAAATTAT
1 AAAATTAT
49659040 ATTTTTACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 13 0.59
16 2 0.09
17 7 0.32
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAAATTATTAAAATAAT
Found at i:49662867 original size:21 final size:21
Alignment explanation
Indices: 49662843--49662913 Score: 133
Period size: 21 Copynumber: 3.4 Consensus size: 21
49662833 ACTACAAATT
49662843 GCCTCCTGCTGCTTTTGCACC
1 GCCTCCTGCTGCTTTTGCACC
49662864 GCCTCCTGCTGCTTTTGCACC
1 GCCTCCTGCTGCTTTTGCACC
49662885 GCCTCCTGCTGCTTTTGCACC
1 GCCTCCTGCTGCTTTTGCACC
*
49662906 TCCTCCTG
1 GCCTCCTG
49662914 TAAGTGTCAC
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.04, C:0.44, G:0.18, T:0.34
Consensus pattern (21 bp):
GCCTCCTGCTGCTTTTGCACC
Found at i:49668560 original size:18 final size:17
Alignment explanation
Indices: 49668528--49668561 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
49668518 TATTATTTTA
49668528 TGATATTGTAATAATAG
1 TGATATTGTAATAATAG
*
49668545 TGATATATGTACTAATA
1 TGATAT-TGTAATAATA
49668562 TTTTTAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.41
Consensus pattern (17 bp):
TGATATTGTAATAATAG
Found at i:49679785 original size:12 final size:12
Alignment explanation
Indices: 49679768--49679793 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49679758 GTTGTTTTCT
49679768 TTTAACTAATCC
1 TTTAACTAATCC
49679780 TTTAACTAATCC
1 TTTAACTAATCC
49679792 TT
1 TT
49679794 CTCCTATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTAACTAATCC
Found at i:49700127 original size:23 final size:23
Alignment explanation
Indices: 49700100--49700143 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
49700090 TTTTAACCAT
49700100 TTGTA-ATTATATTGTACTTGTGA
1 TTGTACATTAT-TTGTACTTGTGA
49700123 TTGTACATTATTTGTACTTGT
1 TTGTACATTATTTGTACTTGT
49700144 AAACTTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.23, C:0.07, G:0.16, T:0.55
Consensus pattern (23 bp):
TTGTACATTATTTGTACTTGTGA
Done.